-- dump date 20140619_041252 -- class Genbank::misc_feature -- table misc_feature_note -- id note 290318000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 290318000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 290318000003 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 290318000004 Walker A motif; other site 290318000005 ATP binding site [chemical binding]; other site 290318000006 Walker B motif; other site 290318000007 arginine finger; other site 290318000008 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 290318000009 DnaA box-binding interface [nucleotide binding]; other site 290318000010 DNA polymerase III subunit beta; Provisional; Region: PRK14941 290318000011 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 290318000012 putative DNA binding surface [nucleotide binding]; other site 290318000013 dimer interface [polypeptide binding]; other site 290318000014 beta-clamp/clamp loader binding surface; other site 290318000015 beta-clamp/translesion DNA polymerase binding surface; other site 290318000016 recombination protein F; Reviewed; Region: recF; PRK00064 290318000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290318000018 Walker A/P-loop; other site 290318000019 ATP binding site [chemical binding]; other site 290318000020 Q-loop/lid; other site 290318000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290318000022 ABC transporter signature motif; other site 290318000023 Walker B; other site 290318000024 D-loop; other site 290318000025 H-loop/switch region; other site 290318000026 Protein of unknown function (DUF721); Region: DUF721; pfam05258 290318000027 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 290318000028 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290318000029 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290318000030 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like2_exo; cd05785 290318000031 DNA polymerase type-B family; Region: POLBc; smart00486 290318000032 active site 290318000033 catalytic site [active] 290318000034 substrate binding site [chemical binding]; other site 290318000035 DNA polymerase type-II B subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II_B; cd05538 290318000036 active site 290318000037 metal-binding site 290318000038 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 290318000039 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290318000040 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 290318000041 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 290318000042 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 290318000043 Cytochrome c; Region: Cytochrom_C; cl11414 290318000044 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 290318000045 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 290318000046 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 290318000047 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 290318000048 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 290318000049 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 290318000050 Protein export membrane protein; Region: SecD_SecF; pfam02355 290318000051 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 290318000052 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 290318000053 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 290318000054 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 290318000055 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 290318000056 ATP binding site [chemical binding]; other site 290318000057 Mg2+ binding site [ion binding]; other site 290318000058 G-X-G motif; other site 290318000059 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 290318000060 anchoring element; other site 290318000061 dimer interface [polypeptide binding]; other site 290318000062 ATP binding site [chemical binding]; other site 290318000063 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 290318000064 active site 290318000065 putative metal-binding site [ion binding]; other site 290318000066 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 290318000067 hypothetical protein; Reviewed; Region: PRK12497 290318000068 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 290318000069 RNA/DNA hybrid binding site [nucleotide binding]; other site 290318000070 active site 290318000071 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 290318000072 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 290318000073 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 290318000074 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 290318000075 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 290318000076 trimer interface [polypeptide binding]; other site 290318000077 active site 290318000078 substrate binding site [chemical binding]; other site 290318000079 CoA binding site [chemical binding]; other site 290318000080 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 290318000081 C-terminal peptidase (prc); Region: prc; TIGR00225 290318000082 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 290318000083 protein binding site [polypeptide binding]; other site 290318000084 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 290318000085 Catalytic dyad [active] 290318000086 Protein of unknown function (DUF2499); Region: DUF2499; pfam10693 290318000087 Protein of unknown function (DUF3593); Region: DUF3593; pfam12159 290318000088 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 290318000089 glycyl-tRNA synthetase; Provisional; Region: PRK04173 290318000090 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 290318000091 motif 1; other site 290318000092 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 290318000093 active site 290318000094 motif 2; other site 290318000095 motif 3; other site 290318000096 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 290318000097 anticodon binding site; other site 290318000098 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 290318000099 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 290318000100 dimer interface [polypeptide binding]; other site 290318000101 catalytic triad [active] 290318000102 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 290318000103 gamma subunit interface [polypeptide binding]; other site 290318000104 epsilon subunit interface [polypeptide binding]; other site 290318000105 LBP interface [polypeptide binding]; other site 290318000106 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 290318000107 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 290318000108 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 290318000109 alpha subunit interaction interface [polypeptide binding]; other site 290318000110 Walker A motif; other site 290318000111 ATP binding site [chemical binding]; other site 290318000112 Walker B motif; other site 290318000113 inhibitor binding site; inhibition site 290318000114 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 290318000115 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 290318000116 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 290318000117 catalytic residues [active] 290318000118 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_GTP; cd00819 290318000119 active site 290318000120 substrate-binding site [chemical binding]; other site 290318000121 metal-binding site [ion binding] 290318000122 GTP binding site [chemical binding]; other site 290318000123 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 290318000124 Dodecin; Region: Dodecin; pfam07311 290318000125 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 290318000126 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 290318000127 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 290318000128 Predicted permeases [General function prediction only]; Region: COG0730 290318000129 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 290318000130 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 290318000131 active site residue [active] 290318000132 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 290318000133 CPxP motif; other site 290318000134 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 290318000135 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 290318000136 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 290318000137 catalytic triad [active] 290318000138 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 290318000139 DsrC like protein; Region: DsrC; pfam04358 290318000140 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 290318000141 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 290318000142 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 290318000143 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 290318000144 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 290318000145 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290318000146 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290318000147 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 290318000148 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 290318000149 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 290318000150 DsrH like protein; Region: DsrH; pfam04077 290318000151 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 290318000152 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 290318000153 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 290318000154 Cysteine-rich domain; Region: CCG; pfam02754 290318000155 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 290318000156 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 290318000157 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 290318000158 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 290318000159 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 290318000160 active site 290318000161 SAM binding site [chemical binding]; other site 290318000162 homodimer interface [polypeptide binding]; other site 290318000163 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 290318000164 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 290318000165 active site 290318000166 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 290318000167 H+ Antiporter protein; Region: 2A0121; TIGR00900 290318000168 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 290318000169 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 290318000170 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 290318000171 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 290318000172 putative substrate translocation pore; other site 290318000173 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 290318000174 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 290318000175 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290318000176 HlyD family secretion protein; Region: HlyD_3; pfam13437 290318000177 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 290318000178 Ligand Binding Site [chemical binding]; other site 290318000179 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 290318000180 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 290318000181 GAF domain; Region: GAF_3; pfam13492 290318000182 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 290318000183 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 290318000184 Walker A motif; other site 290318000185 ATP binding site [chemical binding]; other site 290318000186 Walker B motif; other site 290318000187 arginine finger; other site 290318000188 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290318000189 E3 ubiquitin-protein ligase SspH2; Provisional; Region: PRK15387 290318000190 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 290318000191 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 290318000192 cofactor binding site; other site 290318000193 DNA binding site [nucleotide binding] 290318000194 substrate interaction site [chemical binding]; other site 290318000195 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 290318000196 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 290318000197 Family description; Region: UvrD_C_2; pfam13538 290318000198 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 290318000199 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 290318000200 Bacterial PH domain; Region: DUF304; cl01348 290318000201 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 290318000202 Part of AAA domain; Region: AAA_19; pfam13245 290318000203 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 290318000204 DEAD/DEAH box helicase; Region: DEAD; pfam00270 290318000205 Restriction endonuclease; Region: Mrr_cat; pfam04471 290318000206 DEAD-like helicases superfamily; Region: DEXDc; smart00487 290318000207 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 290318000208 ATP binding site [chemical binding]; other site 290318000209 putative Mg++ binding site [ion binding]; other site 290318000210 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 290318000211 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 290318000212 nucleotide binding region [chemical binding]; other site 290318000213 ATP-binding site [chemical binding]; other site 290318000214 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 290318000215 ATP binding site [chemical binding]; other site 290318000216 Mg2+ binding site [ion binding]; other site 290318000217 G-X-G motif; other site 290318000218 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 290318000219 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 290318000220 cofactor binding site; other site 290318000221 DNA binding site [nucleotide binding] 290318000222 substrate interaction site [chemical binding]; other site 290318000223 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 290318000224 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 290318000225 putative active site [active] 290318000226 putative transposase OrfB; Reviewed; Region: PHA02517 290318000227 Homeodomain-like domain; Region: HTH_32; pfam13565 290318000228 Integrase core domain; Region: rve; pfam00665 290318000229 Integrase core domain; Region: rve_3; pfam13683 290318000230 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 290318000231 active site 290318000232 Protein of unknown function DUF262; Region: DUF262; pfam03235 290318000233 Uncharacterized conserved protein [Function unknown]; Region: COG1479 290318000234 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 290318000235 Uncharacterized conserved protein [Function unknown]; Region: COG1479 290318000236 Protein of unknown function DUF262; Region: DUF262; pfam03235 290318000237 HTH domain; Region: HTH_11; pfam08279 290318000238 Predicted transcriptional regulator [Transcription]; Region: COG2378 290318000239 WYL domain; Region: WYL; pfam13280 290318000240 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 290318000241 Predicted transcriptional regulator [Transcription]; Region: COG2378 290318000242 WYL domain; Region: WYL; pfam13280 290318000243 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 290318000244 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 290318000245 catalytic motif [active] 290318000246 Catalytic residue [active] 290318000247 Uncharacterized protein conserved in bacteria (DUF2263); Region: DUF2263; pfam10021 290318000248 TIGR02452 family protein; Region: TIGR02452 290318000249 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 290318000250 Part of AAA domain; Region: AAA_19; pfam13245 290318000251 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 290318000252 AAA domain; Region: AAA_12; pfam13087 290318000253 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 290318000254 putative active site [active] 290318000255 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 290318000256 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_3; cd10035 290318000257 putative uracil binding site [chemical binding]; other site 290318000258 putative active site [active] 290318000259 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 290318000260 Sel1-like repeats; Region: SEL1; smart00671 290318000261 Sel1-like repeats; Region: SEL1; smart00671 290318000262 Sel1-like repeats; Region: SEL1; smart00671 290318000263 Sel1-like repeats; Region: SEL1; smart00671 290318000264 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 290318000265 Sel1-like repeats; Region: SEL1; smart00671 290318000266 Sel1-like repeats; Region: SEL1; smart00671 290318000267 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 290318000268 binding surface 290318000269 TPR motif; other site 290318000270 Transposase; Region: HTH_Tnp_1; cl17663 290318000271 Integrase core domain; Region: rve; pfam00665 290318000272 Integrase core domain; Region: rve_3; pfam13683 290318000273 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cl03295 290318000274 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 290318000275 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 290318000276 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 290318000277 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 290318000278 Dimer interface [polypeptide binding]; other site 290318000279 BRCT sequence motif; other site 290318000280 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 290318000281 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 290318000282 dimerization interface [polypeptide binding]; other site 290318000283 putative DNA binding site [nucleotide binding]; other site 290318000284 putative Zn2+ binding site [ion binding]; other site 290318000285 putative molybdenum utilization protein ModD; Region: modD; TIGR01334 290318000286 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 290318000287 dimerization interface [polypeptide binding]; other site 290318000288 active site 290318000289 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 290318000290 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 290318000291 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 290318000292 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290318000293 dimer interface [polypeptide binding]; other site 290318000294 conserved gate region; other site 290318000295 putative PBP binding loops; other site 290318000296 ABC-ATPase subunit interface; other site 290318000297 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290318000298 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 290318000299 Walker A/P-loop; other site 290318000300 ATP binding site [chemical binding]; other site 290318000301 Q-loop/lid; other site 290318000302 ABC transporter signature motif; other site 290318000303 Walker B; other site 290318000304 D-loop; other site 290318000305 H-loop/switch region; other site 290318000306 TOBE domain; Region: TOBE; cl01440 290318000307 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 290318000308 DNA-binding interface [nucleotide binding]; DNA binding site 290318000309 Winged helix-turn helix; Region: HTH_29; pfam13551 290318000310 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 290318000311 HTH-like domain; Region: HTH_21; pfam13276 290318000312 Integrase core domain; Region: rve; pfam00665 290318000313 Integrase core domain; Region: rve_3; pfam13683 290318000314 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 290318000315 Integrase core domain; Region: rve_3; pfam13683 290318000316 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 290318000317 PEGA domain; Region: PEGA; pfam08308 290318000318 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 290318000319 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 290318000320 active site 290318000321 catalytic site [active] 290318000322 substrate binding site [chemical binding]; other site 290318000323 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290318000324 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 290318000325 non-specific DNA binding site [nucleotide binding]; other site 290318000326 salt bridge; other site 290318000327 sequence-specific DNA binding site [nucleotide binding]; other site 290318000328 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 290318000329 metal ion-dependent adhesion site (MIDAS); other site 290318000330 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 290318000331 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 290318000332 response regulator; Provisional; Region: PRK09483 290318000333 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 290318000334 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 290318000335 Catalytic site [active] 290318000336 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 290318000337 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 290318000338 active site 290318000339 DNA binding site [nucleotide binding] 290318000340 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 290318000341 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 290318000342 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 290318000343 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 290318000344 putative FMN binding site [chemical binding]; other site 290318000345 Protein of unknown function (DUF1997); Region: DUF1997; pfam09366 290318000346 peptide chain release factor 1; Validated; Region: prfA; PRK00591 290318000347 Protein of unknown function (DUF2031); Region: DUF2031; cl09810 290318000348 PCRF domain; Region: PCRF; pfam03462 290318000349 RF-1 domain; Region: RF-1; pfam00472 290318000350 RIP metalloprotease RseP; Region: TIGR00054 290318000351 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 290318000352 active site 290318000353 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 290318000354 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 290318000355 protein binding site [polypeptide binding]; other site 290318000356 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 290318000357 putative substrate binding region [chemical binding]; other site 290318000358 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 290318000359 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 290318000360 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 290318000361 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 290318000362 FtsH Extracellular; Region: FtsH_ext; pfam06480 290318000363 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 290318000364 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 290318000365 Walker B motif; other site 290318000366 arginine finger; other site 290318000367 Peptidase family M41; Region: Peptidase_M41; pfam01434 290318000368 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 290318000369 active site 290318000370 dimer interface [polypeptide binding]; other site 290318000371 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 290318000372 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 290318000373 glutaminase active site [active] 290318000374 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 290318000375 dimer interface [polypeptide binding]; other site 290318000376 active site 290318000377 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 290318000378 dimer interface [polypeptide binding]; other site 290318000379 active site 290318000380 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 290318000381 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 290318000382 catalytic residues [active] 290318000383 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 290318000384 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 290318000385 active site 290318000386 metal binding site [ion binding]; metal-binding site 290318000387 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 290318000388 Cytochrome c [Energy production and conversion]; Region: COG3258 290318000389 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 290318000390 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 290318000391 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 290318000392 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 290318000393 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 290318000394 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 290318000395 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 290318000396 HTH-like domain; Region: HTH_21; pfam13276 290318000397 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 290318000398 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 290318000399 putative active site [active] 290318000400 putative NTP binding site [chemical binding]; other site 290318000401 putative nucleic acid binding site [nucleotide binding]; other site 290318000402 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 290318000403 Integrase core domain; Region: rve; pfam00665 290318000404 Integrase core domain; Region: rve_3; pfam13683 290318000405 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 290318000406 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 290318000407 putative dimer interface [polypeptide binding]; other site 290318000408 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 290318000409 LPP20 lipoprotein; Region: LPP20; cl15824 290318000410 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 290318000411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290318000412 TIGR01777 family protein; Region: yfcH 290318000413 NAD(P) binding site [chemical binding]; other site 290318000414 active site 290318000415 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 290318000416 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 290318000417 Nitrogen regulatory protein P-II; Region: P-II; smart00938 290318000418 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 290318000419 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 290318000420 active site 290318000421 TPR repeat; Region: TPR_11; pfam13414 290318000422 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 290318000423 binding surface 290318000424 TPR motif; other site 290318000425 TPR repeat; Region: TPR_11; pfam13414 290318000426 TPR repeat; Region: TPR_11; pfam13414 290318000427 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 290318000428 binding surface 290318000429 TPR motif; other site 290318000430 ScpA/B protein; Region: ScpA_ScpB; cl00598 290318000431 Uncharacterized conserved protein [Function unknown]; Region: COG4198 290318000432 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 290318000433 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 290318000434 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 290318000435 Glycoprotease family; Region: Peptidase_M22; pfam00814 290318000436 Oligomerisation domain; Region: Oligomerisation; pfam02410 290318000437 DNA gyrase subunit A; Validated; Region: PRK05560 290318000438 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 290318000439 CAP-like domain; other site 290318000440 active site 290318000441 primary dimer interface [polypeptide binding]; other site 290318000442 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290318000443 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290318000444 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290318000445 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290318000446 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290318000447 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290318000448 CTP synthetase; Validated; Region: pyrG; PRK05380 290318000449 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 290318000450 Catalytic site [active] 290318000451 active site 290318000452 UTP binding site [chemical binding]; other site 290318000453 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 290318000454 active site 290318000455 putative oxyanion hole; other site 290318000456 catalytic triad [active] 290318000457 Mechanosensitive ion channel; Region: MS_channel; pfam00924 290318000458 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 290318000459 non-specific DNA binding site [nucleotide binding]; other site 290318000460 salt bridge; other site 290318000461 sequence-specific DNA binding site [nucleotide binding]; other site 290318000462 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 290318000463 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290318000464 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 290318000465 phosphorylation site [posttranslational modification] 290318000466 intermolecular recognition site; other site 290318000467 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 290318000468 DNA binding site [nucleotide binding] 290318000469 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 290318000470 active site 290318000471 Domain of Unknown Function (DUF3856); Region: DUF3856; pfam12968 290318000472 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 290318000473 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 290318000474 putative active site [active] 290318000475 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 290318000476 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 290318000477 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 290318000478 dimer interface [polypeptide binding]; other site 290318000479 ssDNA binding site [nucleotide binding]; other site 290318000480 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290318000481 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 290318000482 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 290318000483 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 290318000484 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 290318000485 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 290318000486 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 290318000487 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 290318000488 dimer interface [polypeptide binding]; other site 290318000489 motif 1; other site 290318000490 active site 290318000491 motif 2; other site 290318000492 motif 3; other site 290318000493 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 290318000494 23S rRNA binding site [nucleotide binding]; other site 290318000495 L21 binding site [polypeptide binding]; other site 290318000496 L13 binding site [polypeptide binding]; other site 290318000497 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 290318000498 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 290318000499 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 290318000500 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 290318000501 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 290318000502 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 290318000503 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 290318000504 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 290318000505 active site 290318000506 dimer interface [polypeptide binding]; other site 290318000507 motif 1; other site 290318000508 motif 2; other site 290318000509 motif 3; other site 290318000510 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 290318000511 anticodon binding site; other site 290318000512 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 290318000513 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 290318000514 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 290318000515 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 290318000516 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 290318000517 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 290318000518 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 290318000519 active site 290318000520 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 290318000521 tetramer interface [polypeptide binding]; other site 290318000522 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290318000523 catalytic residue [active] 290318000524 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 290318000525 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 290318000526 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 290318000527 dimerization interface [polypeptide binding]; other site 290318000528 active site 290318000529 metal binding site [ion binding]; metal-binding site 290318000530 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 290318000531 dsRNA binding site [nucleotide binding]; other site 290318000532 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 290318000533 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 290318000534 dimer interface [polypeptide binding]; other site 290318000535 active site 290318000536 acyl carrier protein; Provisional; Region: acpP; PRK00982 290318000537 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 290318000538 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 290318000539 NAD(P) binding site [chemical binding]; other site 290318000540 homotetramer interface [polypeptide binding]; other site 290318000541 homodimer interface [polypeptide binding]; other site 290318000542 active site 290318000543 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 290318000544 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 290318000545 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 290318000546 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 290318000547 dimer interface [polypeptide binding]; other site 290318000548 active site 290318000549 CoA binding pocket [chemical binding]; other site 290318000550 putative phosphate acyltransferase; Provisional; Region: PRK05331 290318000551 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 290318000552 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 290318000553 META domain; Region: META; pfam03724 290318000554 2-isopropylmalate synthase; Validated; Region: PRK03739 290318000555 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 290318000556 active site 290318000557 catalytic residues [active] 290318000558 metal binding site [ion binding]; metal-binding site 290318000559 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 290318000560 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 290318000561 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 290318000562 putative metal binding residues [ion binding]; other site 290318000563 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 290318000564 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 290318000565 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 290318000566 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 290318000567 ABC-ATPase subunit interface; other site 290318000568 dimer interface [polypeptide binding]; other site 290318000569 putative PBP binding regions; other site 290318000570 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 290318000571 Ligand Binding Site [chemical binding]; other site 290318000572 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional; Region: PRK14490 290318000573 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 290318000574 Walker A motif; other site 290318000575 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 290318000576 GTP binding site; other site 290318000577 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 290318000578 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 290318000579 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 290318000580 active site 290318000581 catalytic site [active] 290318000582 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 290318000583 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 290318000584 trimer interface [polypeptide binding]; other site 290318000585 dimer interface [polypeptide binding]; other site 290318000586 putative active site [active] 290318000587 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 290318000588 MPT binding site; other site 290318000589 trimer interface [polypeptide binding]; other site 290318000590 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 290318000591 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 290318000592 dimer interface [polypeptide binding]; other site 290318000593 putative functional site; other site 290318000594 putative MPT binding site; other site 290318000595 pyrroline-5-carboxylate reductase; Region: PLN02688 290318000596 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 290318000597 Uncharacterized conserved protein [Function unknown]; Region: COG4095 290318000598 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 290318000599 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 290318000600 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 290318000601 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290318000602 catalytic residue [active] 290318000603 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 290318000604 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 290318000605 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 290318000606 catalytic site [active] 290318000607 subunit interface [polypeptide binding]; other site 290318000608 Preprotein translocase subunit; Region: YajC; pfam02699 290318000609 UGMP family protein; Validated; Region: PRK09604 290318000610 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 290318000611 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 290318000612 Clp amino terminal domain; Region: Clp_N; pfam02861 290318000613 Clp amino terminal domain; Region: Clp_N; pfam02861 290318000614 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 290318000615 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 290318000616 Walker A motif; other site 290318000617 ATP binding site [chemical binding]; other site 290318000618 Walker B motif; other site 290318000619 arginine finger; other site 290318000620 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 290318000621 putative amphipathic alpha helix; other site 290318000622 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 290318000623 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 290318000624 GatB domain; Region: GatB_Yqey; smart00845 290318000625 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 290318000626 GTPase CgtA; Reviewed; Region: obgE; PRK12299 290318000627 GTP1/OBG; Region: GTP1_OBG; pfam01018 290318000628 Obg GTPase; Region: Obg; cd01898 290318000629 G1 box; other site 290318000630 GTP/Mg2+ binding site [chemical binding]; other site 290318000631 Switch I region; other site 290318000632 G2 box; other site 290318000633 G3 box; other site 290318000634 Switch II region; other site 290318000635 G4 box; other site 290318000636 G5 box; other site 290318000637 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 290318000638 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290318000639 Coenzyme A binding pocket [chemical binding]; other site 290318000640 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 290318000641 dimerization domain swap beta strand [polypeptide binding]; other site 290318000642 regulatory protein interface [polypeptide binding]; other site 290318000643 active site 290318000644 regulatory phosphorylation site [posttranslational modification]; other site 290318000645 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290318000646 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 290318000647 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 290318000648 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 290318000649 Probable Catalytic site; other site 290318000650 metal-binding site 290318000651 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: GT1_like_1; cd04950 290318000652 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290318000653 putative homodimer interface [polypeptide binding]; other site 290318000654 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 290318000655 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 290318000656 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 290318000657 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 290318000658 S17 interaction site [polypeptide binding]; other site 290318000659 S8 interaction site; other site 290318000660 16S rRNA interaction site [nucleotide binding]; other site 290318000661 streptomycin interaction site [chemical binding]; other site 290318000662 23S rRNA interaction site [nucleotide binding]; other site 290318000663 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 290318000664 30S ribosomal protein S7; Validated; Region: PRK05302 290318000665 elongation factor G; Reviewed; Region: PRK00007 290318000666 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 290318000667 G1 box; other site 290318000668 putative GEF interaction site [polypeptide binding]; other site 290318000669 GTP/Mg2+ binding site [chemical binding]; other site 290318000670 Switch I region; other site 290318000671 G2 box; other site 290318000672 G3 box; other site 290318000673 Switch II region; other site 290318000674 G4 box; other site 290318000675 G5 box; other site 290318000676 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 290318000677 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 290318000678 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 290318000679 elongation factor Tu; Reviewed; Region: PRK00049 290318000680 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 290318000681 G1 box; other site 290318000682 GEF interaction site [polypeptide binding]; other site 290318000683 GTP/Mg2+ binding site [chemical binding]; other site 290318000684 Switch I region; other site 290318000685 G2 box; other site 290318000686 G3 box; other site 290318000687 Switch II region; other site 290318000688 G4 box; other site 290318000689 G5 box; other site 290318000690 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 290318000691 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 290318000692 Antibiotic Binding Site [chemical binding]; other site 290318000693 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 290318000694 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 290318000695 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 290318000696 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 290318000697 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 290318000698 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 290318000699 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 290318000700 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 290318000701 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 290318000702 putative translocon binding site; other site 290318000703 protein-rRNA interface [nucleotide binding]; other site 290318000704 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 290318000705 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 290318000706 G-X-X-G motif; other site 290318000707 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 290318000708 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 290318000709 23S rRNA interface [nucleotide binding]; other site 290318000710 5S rRNA interface [nucleotide binding]; other site 290318000711 putative antibiotic binding site [chemical binding]; other site 290318000712 L25 interface [polypeptide binding]; other site 290318000713 L27 interface [polypeptide binding]; other site 290318000714 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 290318000715 putative translocon interaction site; other site 290318000716 23S rRNA interface [nucleotide binding]; other site 290318000717 signal recognition particle (SRP54) interaction site; other site 290318000718 L23 interface [polypeptide binding]; other site 290318000719 trigger factor interaction site; other site 290318000720 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 290318000721 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 290318000722 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 290318000723 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 290318000724 RNA binding site [nucleotide binding]; other site 290318000725 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 290318000726 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 290318000727 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 290318000728 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 290318000729 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 290318000730 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 290318000731 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 290318000732 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 290318000733 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 290318000734 5S rRNA interface [nucleotide binding]; other site 290318000735 23S rRNA interface [nucleotide binding]; other site 290318000736 L5 interface [polypeptide binding]; other site 290318000737 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 290318000738 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 290318000739 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 290318000740 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 290318000741 23S rRNA binding site [nucleotide binding]; other site 290318000742 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 290318000743 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 290318000744 SecY translocase; Region: SecY; pfam00344 290318000745 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 290318000746 active site 290318000747 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 290318000748 rRNA binding site [nucleotide binding]; other site 290318000749 predicted 30S ribosome binding site; other site 290318000750 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 290318000751 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 290318000752 30S ribosomal protein S13; Region: bact_S13; TIGR03631 290318000753 30S ribosomal protein S11; Validated; Region: PRK05309 290318000754 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 290318000755 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 290318000756 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 290318000757 RNA binding surface [nucleotide binding]; other site 290318000758 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 290318000759 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 290318000760 alphaNTD homodimer interface [polypeptide binding]; other site 290318000761 alphaNTD - beta interaction site [polypeptide binding]; other site 290318000762 alphaNTD - beta' interaction site [polypeptide binding]; other site 290318000763 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 290318000764 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 290318000765 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 290318000766 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 290318000767 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 290318000768 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 290318000769 active site 290318000770 Cupin domain; Region: Cupin_2; cl17218 290318000771 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 290318000772 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 290318000773 active site 290318000774 HIGH motif; other site 290318000775 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 290318000776 KMSKS motif; other site 290318000777 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 290318000778 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 290318000779 G1 box; other site 290318000780 GTP/Mg2+ binding site [chemical binding]; other site 290318000781 Switch I region; other site 290318000782 G2 box; other site 290318000783 G3 box; other site 290318000784 Switch II region; other site 290318000785 G4 box; other site 290318000786 G5 box; other site 290318000787 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 290318000788 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 290318000789 GDP-binding site [chemical binding]; other site 290318000790 ACT binding site; other site 290318000791 IMP binding site; other site 290318000792 Domain of unknown function DUF77; Region: DUF77; pfam01910 290318000793 light-independent protochlorophyllide reductase subunit N; Provisional; Region: PRK02842 290318000794 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 290318000795 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 290318000796 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_B; cd01981 290318000797 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 290318000798 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 290318000799 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are...; Region: Bchl_like; cd02032 290318000800 P-loop; other site 290318000801 V4R domain; Region: V4R; cl15268 290318000802 Bacterial Ig-like domain; Region: Big_5; pfam13205 290318000803 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 290318000804 Bacterial Ig-like domain; Region: Big_5; pfam13205 290318000805 glycogen synthase; Provisional; Region: PRK14098 290318000806 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 290318000807 ADP-binding pocket [chemical binding]; other site 290318000808 homodimer interface [polypeptide binding]; other site 290318000809 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 290318000810 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 290318000811 active site 290318000812 motif I; other site 290318000813 motif II; other site 290318000814 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 290318000815 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 290318000816 FeS/SAM binding site; other site 290318000817 HemN C-terminal domain; Region: HemN_C; pfam06969 290318000818 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 290318000819 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 290318000820 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 290318000821 active site 290318000822 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 290318000823 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 290318000824 nucleotide binding site [chemical binding]; other site 290318000825 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 290318000826 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 290318000827 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290318000828 active site 290318000829 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 290318000830 RNA methyltransferase, RsmE family; Region: TIGR00046 290318000831 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 290318000832 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 290318000833 active site 290318000834 multimer interface [polypeptide binding]; other site 290318000835 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 290318000836 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 290318000837 catalytic triad [active] 290318000838 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 290318000839 Domain of unknown function DUF21; Region: DUF21; pfam01595 290318000840 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 290318000841 Transporter associated domain; Region: CorC_HlyC; smart01091 290318000842 Helix-turn-helix domain; Region: HTH_25; pfam13413 290318000843 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 290318000844 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 290318000845 dimer interface [polypeptide binding]; other site 290318000846 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290318000847 catalytic residue [active] 290318000848 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 290318000849 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 290318000850 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290318000851 catalytic residue [active] 290318000852 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 290318000853 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 290318000854 trimerization site [polypeptide binding]; other site 290318000855 active site 290318000856 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 290318000857 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14340 290318000858 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 290318000859 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 290318000860 FeS/SAM binding site; other site 290318000861 TRAM domain; Region: TRAM; pfam01938 290318000862 bacteriochlorophyll c synthase; Provisional; Region: PRK12392 290318000863 UbiA prenyltransferase family; Region: UbiA; pfam01040 290318000864 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 290318000865 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290318000866 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 290318000867 putative active site [active] 290318000868 putative metal binding site [ion binding]; other site 290318000869 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 290318000870 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 290318000871 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 290318000872 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 290318000873 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 290318000874 active site 290318000875 FOG: WD40 repeat [General function prediction only]; Region: COG2319 290318000876 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 290318000877 structural tetrad; other site 290318000878 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 290318000879 DNA-binding site [nucleotide binding]; DNA binding site 290318000880 RNA-binding motif; other site 290318000881 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 290318000882 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 290318000883 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 290318000884 hypothetical protein; Provisional; Region: PRK09256 290318000885 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 290318000886 Peptidase family M23; Region: Peptidase_M23; pfam01551 290318000887 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 290318000888 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 290318000889 putative dimer interface [polypeptide binding]; other site 290318000890 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 290318000891 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 290318000892 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 290318000893 FeS/SAM binding site; other site 290318000894 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 290318000895 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 290318000896 S-adenosylmethionine binding site [chemical binding]; other site 290318000897 Magnesium-protoporphyrin IX methyltransferase C-terminus; Region: Mg-por_mtran_C; pfam07109 290318000898 magnesium chelatase subunit H; Provisional; Region: PRK12493 290318000899 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 290318000900 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 290318000901 magnesium chelatase, H subunit; Region: BchH; TIGR02025 290318000902 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 290318000903 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 290318000904 Cna protein B-type domain; Region: Cna_B_2; pfam13715 290318000905 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 290318000906 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 290318000907 N-terminal plug; other site 290318000908 ligand-binding site [chemical binding]; other site 290318000909 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 290318000910 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 290318000911 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290318000912 catalytic residue [active] 290318000913 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290318000914 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290318000915 NAD(P) binding site [chemical binding]; other site 290318000916 active site 290318000917 Autotransporter beta-domain; Region: Autotransporter; smart00869 290318000918 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 290318000919 DNA polymerase III, delta subunit; Region: holA; TIGR01128 290318000920 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 290318000921 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 290318000922 dimer interface [polypeptide binding]; other site 290318000923 ssDNA binding site [nucleotide binding]; other site 290318000924 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290318000925 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 290318000926 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 290318000927 FAD binding pocket [chemical binding]; other site 290318000928 FAD binding motif [chemical binding]; other site 290318000929 phosphate binding motif [ion binding]; other site 290318000930 beta-alpha-beta structure motif; other site 290318000931 NAD binding pocket [chemical binding]; other site 290318000932 Iron coordination center [ion binding]; other site 290318000933 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 290318000934 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 290318000935 P loop; other site 290318000936 Nucleotide binding site [chemical binding]; other site 290318000937 DTAP/Switch II; other site 290318000938 Switch I; other site 290318000939 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 290318000940 Chlorosome envelope protein C; Region: Chlorosome_CsmC; pfam11098 290318000941 Bacteriochlorophyll C binding protein; Region: Bac_chlorC; pfam02043 290318000942 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 290318000943 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 290318000944 P loop; other site 290318000945 Nucleotide binding site [chemical binding]; other site 290318000946 DTAP/Switch II; other site 290318000947 Switch I; other site 290318000948 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 290318000949 catalytic center binding site [active] 290318000950 ATP binding site [chemical binding]; other site 290318000951 Dihydroneopterin aldolase; Region: FolB; pfam02152 290318000952 active site 290318000953 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 290318000954 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 290318000955 dimerization interface [polypeptide binding]; other site 290318000956 active site 290318000957 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK14663 290318000958 trigger factor; Region: tig; TIGR00115 290318000959 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 290318000960 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 290318000961 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 290318000962 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 290318000963 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 290318000964 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 290318000965 putative NADP binding site [chemical binding]; other site 290318000966 putative substrate binding site [chemical binding]; other site 290318000967 active site 290318000968 recombinase A; Provisional; Region: recA; PRK09354 290318000969 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 290318000970 hexamer interface [polypeptide binding]; other site 290318000971 Walker A motif; other site 290318000972 ATP binding site [chemical binding]; other site 290318000973 Walker B motif; other site 290318000974 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 290318000975 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 290318000976 FMN binding site [chemical binding]; other site 290318000977 active site 290318000978 catalytic residues [active] 290318000979 substrate binding site [chemical binding]; other site 290318000980 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 290318000981 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 290318000982 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 290318000983 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 290318000984 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 290318000985 alanine racemase; Reviewed; Region: alr; PRK00053 290318000986 active site 290318000987 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 290318000988 dimer interface [polypeptide binding]; other site 290318000989 substrate binding site [chemical binding]; other site 290318000990 catalytic residues [active] 290318000991 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 290318000992 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 290318000993 dimer interface [polypeptide binding]; other site 290318000994 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290318000995 catalytic residue [active] 290318000996 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 290318000997 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 290318000998 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 290318000999 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 290318001000 hinge; other site 290318001001 active site 290318001002 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290318001003 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 290318001004 YtxH-like protein; Region: YtxH; pfam12732 290318001005 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 290318001006 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290318001007 Zn2+ binding site [ion binding]; other site 290318001008 Mg2+ binding site [ion binding]; other site 290318001009 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 290318001010 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 290318001011 Walker A/P-loop; other site 290318001012 ATP binding site [chemical binding]; other site 290318001013 Q-loop/lid; other site 290318001014 ABC transporter signature motif; other site 290318001015 Walker B; other site 290318001016 D-loop; other site 290318001017 H-loop/switch region; other site 290318001018 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 290318001019 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 290318001020 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 290318001021 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 290318001022 trimer interface [polypeptide binding]; other site 290318001023 putative metal binding site [ion binding]; other site 290318001024 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 290318001025 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290318001026 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290318001027 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 290318001028 Mechanosensitive ion channel; Region: MS_channel; pfam00924 290318001029 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 290318001030 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 290318001031 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 290318001032 Peptidase family U32; Region: Peptidase_U32; pfam01136 290318001033 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 290318001034 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 290318001035 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 290318001036 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 290318001037 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 290318001038 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 290318001039 nucleophile elbow; other site 290318001040 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 290318001041 putative deacylase active site [active] 290318001042 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290318001043 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_2; cd03814 290318001044 Bacteriochlorophyll C binding protein; Region: Bac_chlorC; pfam02043 290318001045 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 290318001046 B12 binding site [chemical binding]; other site 290318001047 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 290318001048 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 290318001049 FeS/SAM binding site; other site 290318001050 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; pfam07284 290318001051 classical (c) SDRs; Region: SDR_c; cd05233 290318001052 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 290318001053 NAD(P) binding site [chemical binding]; other site 290318001054 active site 290318001055 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 290318001056 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 290318001057 dimer interface [polypeptide binding]; other site 290318001058 phosphorylation site [posttranslational modification] 290318001059 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 290318001060 ATP binding site [chemical binding]; other site 290318001061 Mg2+ binding site [ion binding]; other site 290318001062 G-X-G motif; other site 290318001063 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 290318001064 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 290318001065 active site 290318001066 phosphorylation site [posttranslational modification] 290318001067 intermolecular recognition site; other site 290318001068 dimerization interface [polypeptide binding]; other site 290318001069 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 290318001070 putative binding surface; other site 290318001071 active site 290318001072 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 290318001073 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 290318001074 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 290318001075 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 290318001076 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 290318001077 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 290318001078 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 290318001079 putative active site [active] 290318001080 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 290318001081 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 290318001082 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 290318001083 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 290318001084 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 290318001085 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 290318001086 putative hydrophobic ligand binding site [chemical binding]; other site 290318001087 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 290318001088 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 290318001089 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 290318001090 substrate binding pocket [chemical binding]; other site 290318001091 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 290318001092 B12 binding site [chemical binding]; other site 290318001093 cobalt ligand [ion binding]; other site 290318001094 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 290318001095 putative hydrolase; Provisional; Region: PRK11460 290318001096 Predicted esterase [General function prediction only]; Region: COG0400 290318001097 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 290318001098 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 290318001099 Ligand Binding Site [chemical binding]; other site 290318001100 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 290318001101 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 290318001102 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 290318001103 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 290318001104 MgtE intracellular N domain; Region: MgtE_N; smart00924 290318001105 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 290318001106 Divalent cation transporter; Region: MgtE; pfam01769 290318001107 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 290318001108 active site 290318001109 DNA binding site [nucleotide binding] 290318001110 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 290318001111 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 290318001112 P-loop; other site 290318001113 Magnesium ion binding site [ion binding]; other site 290318001114 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 290318001115 Magnesium ion binding site [ion binding]; other site 290318001116 ParB-like nuclease domain; Region: ParB; smart00470 290318001117 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 290318001118 KorB domain; Region: KorB; pfam08535 290318001119 dihydrodipicolinate reductase; Provisional; Region: PRK00048 290318001120 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 290318001121 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 290318001122 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 290318001123 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 290318001124 acyl-activating enzyme (AAE) consensus motif; other site 290318001125 putative AMP binding site [chemical binding]; other site 290318001126 putative active site [active] 290318001127 putative CoA binding site [chemical binding]; other site 290318001128 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 290318001129 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 290318001130 active site 290318001131 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 290318001132 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 290318001133 substrate binding site [chemical binding]; other site 290318001134 oxyanion hole (OAH) forming residues; other site 290318001135 trimer interface [polypeptide binding]; other site 290318001136 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 290318001137 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 290318001138 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 290318001139 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 290318001140 active site 290318001141 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 290318001142 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 290318001143 dimer interface [polypeptide binding]; other site 290318001144 tetramer interface [polypeptide binding]; other site 290318001145 PYR/PP interface [polypeptide binding]; other site 290318001146 TPP binding site [chemical binding]; other site 290318001147 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 290318001148 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 290318001149 TPP-binding site; other site 290318001150 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 290318001151 chorismate binding enzyme; Region: Chorismate_bind; cl10555 290318001152 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 290318001153 binding surface 290318001154 Tetratricopeptide repeat; Region: TPR_16; pfam13432 290318001155 TPR motif; other site 290318001156 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 290318001157 binding surface 290318001158 TPR motif; other site 290318001159 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 290318001160 putative metal binding site [ion binding]; other site 290318001161 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 290318001162 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 290318001163 Citrate synthase; Region: Citrate_synt; pfam00285 290318001164 oxalacetate binding site [chemical binding]; other site 290318001165 citrylCoA binding site [chemical binding]; other site 290318001166 coenzyme A binding site [chemical binding]; other site 290318001167 catalytic triad [active] 290318001168 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 290318001169 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 290318001170 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 290318001171 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 290318001172 Ligand binding site; other site 290318001173 oligomer interface; other site 290318001174 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 290318001175 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 290318001176 generic binding surface II; other site 290318001177 generic binding surface I; other site 290318001178 Sporulation related domain; Region: SPOR; pfam05036 290318001179 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 290318001180 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 290318001181 ribosome recycling factor; Reviewed; Region: frr; PRK00083 290318001182 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 290318001183 hinge region; other site 290318001184 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 290318001185 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 290318001186 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 290318001187 generic binding surface II; other site 290318001188 ssDNA binding site; other site 290318001189 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 290318001190 ATP binding site [chemical binding]; other site 290318001191 putative Mg++ binding site [ion binding]; other site 290318001192 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 290318001193 nucleotide binding region [chemical binding]; other site 290318001194 ATP-binding site [chemical binding]; other site 290318001195 GTPase RsgA; Reviewed; Region: PRK00098 290318001196 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 290318001197 RNA binding site [nucleotide binding]; other site 290318001198 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 290318001199 GTPase/Zn-binding domain interface [polypeptide binding]; other site 290318001200 GTP/Mg2+ binding site [chemical binding]; other site 290318001201 G4 box; other site 290318001202 G5 box; other site 290318001203 G1 box; other site 290318001204 Switch I region; other site 290318001205 G2 box; other site 290318001206 G3 box; other site 290318001207 Switch II region; other site 290318001208 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 290318001209 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 290318001210 NAD(P) binding site [chemical binding]; other site 290318001211 catalytic residues [active] 290318001212 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 290318001213 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 290318001214 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 290318001215 Uncharacterized proteins, Left-handed parallel beta-Helix (LbH) domain: Members in this group are uncharacterized bacterial proteins containing a LbH domain with multiple turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif...; Region: LbH_unknown; cd05635 290318001216 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 290318001217 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 290318001218 glutamine binding [chemical binding]; other site 290318001219 catalytic triad [active] 290318001220 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 290318001221 Haem-binding domain; Region: Haem_bd; pfam14376 290318001222 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 290318001223 sequence-specific DNA binding site [nucleotide binding]; other site 290318001224 salt bridge; other site 290318001225 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 290318001226 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 290318001227 stationary phase survival protein SurE; Provisional; Region: PRK13932 290318001228 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 290318001229 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 290318001230 nucleophile elbow; other site 290318001231 Surface antigen; Region: Bac_surface_Ag; pfam01103 290318001232 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 290318001233 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 290318001234 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 290318001235 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 290318001236 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 290318001237 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 290318001238 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 290318001239 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 290318001240 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 290318001241 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cd00110 290318001242 Pentraxins are plasma proteins characterized by their pentameric discoid assembly and their Ca2+ dependent ligand binding, such as Serum amyloid P component (SAP) and C-reactive Protein (CRP), which are cytokine-inducible acute-phase proteins implicated...; Region: PTX; cl00102 290318001243 calcium mediated ligand binding site; other site 290318001244 intermolecular salt bridges; other site 290318001245 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 290318001246 PA14 domain; Region: PA14; cl08459 290318001247 VCBS repeat; Region: VCBS_repeat; TIGR01965 290318001248 VCBS repeat; Region: VCBS_repeat; TIGR01965 290318001249 VCBS repeat; Region: VCBS_repeat; TIGR01965 290318001250 VCBS repeat; Region: VCBS_repeat; TIGR01965 290318001251 VCBS repeat; Region: VCBS_repeat; TIGR01965 290318001252 VCBS repeat; Region: VCBS_repeat; TIGR01965 290318001253 VCBS repeat; Region: VCBS_repeat; TIGR01965 290318001254 VCBS repeat; Region: VCBS_repeat; TIGR01965 290318001255 VCBS repeat; Region: VCBS_repeat; TIGR01965 290318001256 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 290318001257 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290318001258 HlyD family secretion protein; Region: HlyD_3; pfam13437 290318001259 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290318001260 HlyD family secretion protein; Region: HlyD_3; pfam13437 290318001261 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cd05709 290318001262 Peptidase family M50; Region: Peptidase_M50; pfam02163 290318001263 active site 290318001264 putative substrate binding region [chemical binding]; other site 290318001265 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290318001266 HlyD family secretion protein; Region: HlyD_3; pfam13437 290318001267 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 290318001268 binding surface 290318001269 TPR motif; other site 290318001270 Outer membrane efflux protein; Region: OEP; pfam02321 290318001271 Outer membrane efflux protein; Region: OEP; pfam02321 290318001272 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290318001273 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 290318001274 active site 290318001275 phosphorylation site [posttranslational modification] 290318001276 intermolecular recognition site; other site 290318001277 dimerization interface [polypeptide binding]; other site 290318001278 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; pfam00486 290318001279 DNA binding site [nucleotide binding] 290318001280 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 290318001281 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 290318001282 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290318001283 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 290318001284 dimer interface [polypeptide binding]; other site 290318001285 phosphorylation site [posttranslational modification] 290318001286 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 290318001287 ATP binding site [chemical binding]; other site 290318001288 Mg2+ binding site [ion binding]; other site 290318001289 G-X-G motif; other site 290318001290 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 290318001291 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 290318001292 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290318001293 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 290318001294 dimer interface [polypeptide binding]; other site 290318001295 phosphorylation site [posttranslational modification] 290318001296 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 290318001297 ATP binding site [chemical binding]; other site 290318001298 Mg2+ binding site [ion binding]; other site 290318001299 G-X-G motif; other site 290318001300 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 290318001301 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 290318001302 Right handed beta helix region; Region: Beta_helix; pfam13229 290318001303 VCBS repeat; Region: VCBS_repeat; TIGR01965 290318001304 VCBS repeat; Region: VCBS_repeat; TIGR01965 290318001305 VCBS repeat; Region: VCBS_repeat; TIGR01965 290318001306 VCBS repeat; Region: VCBS_repeat; TIGR01965 290318001307 VCBS repeat; Region: VCBS_repeat; TIGR01965 290318001308 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 290318001309 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290318001310 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 290318001311 Walker A/P-loop; other site 290318001312 ATP binding site [chemical binding]; other site 290318001313 Q-loop/lid; other site 290318001314 ABC transporter signature motif; other site 290318001315 Walker B; other site 290318001316 D-loop; other site 290318001317 H-loop/switch region; other site 290318001318 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 290318001319 HlyD family secretion protein; Region: HlyD_3; pfam13437 290318001320 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 290318001321 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 290318001322 Clp protease; Region: CLP_protease; pfam00574 290318001323 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 290318001324 oligomer interface [polypeptide binding]; other site 290318001325 active site residues [active] 290318001326 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 290318001327 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290318001328 active site 290318001329 HIGH motif; other site 290318001330 nucleotide binding site [chemical binding]; other site 290318001331 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 290318001332 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 290318001333 active site 290318001334 KMSKS motif; other site 290318001335 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 290318001336 tRNA binding surface [nucleotide binding]; other site 290318001337 anticodon binding site; other site 290318001338 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 290318001339 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 290318001340 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 290318001341 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290318001342 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 290318001343 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 290318001344 DNA binding residues [nucleotide binding] 290318001345 Predicted permeases [General function prediction only]; Region: COG0795 290318001346 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 290318001347 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 290318001348 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 290318001349 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 290318001350 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 290318001351 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 290318001352 excinuclease ABC subunit B; Provisional; Region: PRK05298 290318001353 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 290318001354 ATP binding site [chemical binding]; other site 290318001355 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 290318001356 nucleotide binding region [chemical binding]; other site 290318001357 ATP-binding site [chemical binding]; other site 290318001358 Ultra-violet resistance protein B; Region: UvrB; pfam12344 290318001359 UvrB/uvrC motif; Region: UVR; pfam02151 290318001360 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 290318001361 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290318001362 Zn2+ binding site [ion binding]; other site 290318001363 Mg2+ binding site [ion binding]; other site 290318001364 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 290318001365 synthetase active site [active] 290318001366 NTP binding site [chemical binding]; other site 290318001367 metal binding site [ion binding]; metal-binding site 290318001368 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 290318001369 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 290318001370 LemA family; Region: LemA; cl00742 290318001371 Repair protein; Region: Repair_PSII; pfam04536 290318001372 Repair protein; Region: Repair_PSII; cl01535 290318001373 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 290318001374 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 290318001375 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 290318001376 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 290318001377 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 290318001378 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 290318001379 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 290318001380 Domain of unknown function DUF59; Region: DUF59; pfam01883 290318001381 antiporter inner membrane protein; Provisional; Region: PRK11670 290318001382 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 290318001383 Walker A motif; other site 290318001384 GTP-binding protein Der; Reviewed; Region: PRK00093 290318001385 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 290318001386 G1 box; other site 290318001387 GTP/Mg2+ binding site [chemical binding]; other site 290318001388 Switch I region; other site 290318001389 G2 box; other site 290318001390 Switch II region; other site 290318001391 G3 box; other site 290318001392 G4 box; other site 290318001393 G5 box; other site 290318001394 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 290318001395 G1 box; other site 290318001396 GTP/Mg2+ binding site [chemical binding]; other site 290318001397 Switch I region; other site 290318001398 G2 box; other site 290318001399 G3 box; other site 290318001400 Switch II region; other site 290318001401 G4 box; other site 290318001402 G5 box; other site 290318001403 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 290318001404 23S rRNA interface [nucleotide binding]; other site 290318001405 L3 interface [polypeptide binding]; other site 290318001406 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 290318001407 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 290318001408 rRNA interaction site [nucleotide binding]; other site 290318001409 S8 interaction site; other site 290318001410 putative laminin-1 binding site; other site 290318001411 elongation factor Ts; Provisional; Region: tsf; PRK09377 290318001412 UBA/TS-N domain; Region: UBA; pfam00627 290318001413 Elongation factor TS; Region: EF_TS; pfam00889 290318001414 Elongation factor TS; Region: EF_TS; pfam00889 290318001415 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 290318001416 putative nucleotide binding site [chemical binding]; other site 290318001417 uridine monophosphate binding site [chemical binding]; other site 290318001418 homohexameric interface [polypeptide binding]; other site 290318001419 recombination regulator RecX; Reviewed; Region: recX; PRK00117 290318001420 short chain dehydrogenase; Validated; Region: PRK08324 290318001421 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 290318001422 active site 290318001423 Zn2+ binding site [ion binding]; other site 290318001424 intersubunit interface [polypeptide binding]; other site 290318001425 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 290318001426 putative NAD(P) binding site [chemical binding]; other site 290318001427 active site 290318001428 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 290318001429 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 290318001430 putative active site; other site 290318001431 catalytic residue [active] 290318001432 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 290318001433 ribulose bisphosphate carboxylase, type III; Region: rubisco_III; TIGR03326 290318001434 dimer interface [polypeptide binding]; other site 290318001435 catalytic residue [active] 290318001436 metal binding site [ion binding]; metal-binding site 290318001437 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 290318001438 classical (c) SDRs; Region: SDR_c; cd05233 290318001439 NAD(P) binding site [chemical binding]; other site 290318001440 active site 290318001441 Lipopolysaccharide-assembly; Region: LptE; cl01125 290318001442 HEPN domain; Region: HEPN; cl00824 290318001443 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 290318001444 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 290318001445 substrate binding site; other site 290318001446 tetramer interface; other site 290318001447 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 290318001448 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 290318001449 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 290318001450 NADP binding site [chemical binding]; other site 290318001451 active site 290318001452 putative substrate binding site [chemical binding]; other site 290318001453 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 290318001454 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 290318001455 NAD binding site [chemical binding]; other site 290318001456 substrate binding site [chemical binding]; other site 290318001457 homodimer interface [polypeptide binding]; other site 290318001458 active site 290318001459 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 290318001460 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 290318001461 NAD binding site [chemical binding]; other site 290318001462 homodimer interface [polypeptide binding]; other site 290318001463 active site 290318001464 substrate binding site [chemical binding]; other site 290318001465 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 290318001466 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 290318001467 Substrate binding site; other site 290318001468 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 290318001469 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 290318001470 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290318001471 active site 290318001472 HIGH motif; other site 290318001473 nucleotide binding site [chemical binding]; other site 290318001474 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290318001475 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290318001476 active site 290318001477 KMSKS motif; other site 290318001478 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 290318001479 tRNA binding surface [nucleotide binding]; other site 290318001480 anticodon binding site; other site 290318001481 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 290318001482 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 290318001483 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 290318001484 active site 290318001485 tetramer interface [polypeptide binding]; other site 290318001486 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290318001487 active site 290318001488 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 290318001489 endonuclease IV; Provisional; Region: PRK01060 290318001490 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 290318001491 AP (apurinic/apyrimidinic) site pocket; other site 290318001492 DNA interaction; other site 290318001493 Metal-binding active site; metal-binding site 290318001494 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 290318001495 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 290318001496 Ligand binding site; other site 290318001497 Putative Catalytic site; other site 290318001498 DXD motif; other site 290318001499 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 290318001500 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 290318001501 FeS/SAM binding site; other site 290318001502 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 290318001503 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 290318001504 active site 290318001505 substrate binding site [chemical binding]; other site 290318001506 cosubstrate binding site; other site 290318001507 catalytic site [active] 290318001508 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 290318001509 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 290318001510 purine monophosphate binding site [chemical binding]; other site 290318001511 dimer interface [polypeptide binding]; other site 290318001512 putative catalytic residues [active] 290318001513 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 290318001514 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 290318001515 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 290318001516 Transposase; Region: DEDD_Tnp_IS110; pfam01548 290318001517 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 290318001518 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 290318001519 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 290318001520 Uncharacterized conserved protein [Function unknown]; Region: COG3349 290318001521 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290318001522 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 290318001523 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 290318001524 iron-sulfur cluster [ion binding]; other site 290318001525 [2Fe-2S] cluster binding site [ion binding]; other site 290318001526 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 290318001527 Beta-lactamase; Region: Beta-lactamase; pfam00144 290318001528 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 290318001529 mce related protein; Region: MCE; pfam02470 290318001530 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 290318001531 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 290318001532 Walker A/P-loop; other site 290318001533 ATP binding site [chemical binding]; other site 290318001534 Q-loop/lid; other site 290318001535 ABC transporter signature motif; other site 290318001536 Walker B; other site 290318001537 D-loop; other site 290318001538 H-loop/switch region; other site 290318001539 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 290318001540 Permease; Region: Permease; pfam02405 290318001541 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 290318001542 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 290318001543 active site 290318001544 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 290318001545 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 290318001546 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 290318001547 active site 290318001548 dimerization interface [polypeptide binding]; other site 290318001549 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 290318001550 active site 290318001551 hydrophilic channel; other site 290318001552 dimerization interface [polypeptide binding]; other site 290318001553 catalytic residues [active] 290318001554 active site lid [active] 290318001555 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 290318001556 MutS domain III; Region: MutS_III; pfam05192 290318001557 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 290318001558 Walker A/P-loop; other site 290318001559 ATP binding site [chemical binding]; other site 290318001560 Q-loop/lid; other site 290318001561 ABC transporter signature motif; other site 290318001562 Walker B; other site 290318001563 D-loop; other site 290318001564 H-loop/switch region; other site 290318001565 Smr domain; Region: Smr; pfam01713 290318001566 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 290318001567 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 290318001568 tetramer interfaces [polypeptide binding]; other site 290318001569 binuclear metal-binding site [ion binding]; other site 290318001570 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 290318001571 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 290318001572 TPP-binding site; other site 290318001573 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 290318001574 PYR/PP interface [polypeptide binding]; other site 290318001575 dimer interface [polypeptide binding]; other site 290318001576 TPP binding site [chemical binding]; other site 290318001577 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 290318001578 Uncharacterized conserved protein [Function unknown]; Region: COG0432 290318001579 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_1; cd11347 290318001580 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 290318001581 active site 290318001582 catalytic site [active] 290318001583 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 290318001584 Part of AAA domain; Region: AAA_19; pfam13245 290318001585 Family description; Region: UvrD_C_2; pfam13538 290318001586 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 290318001587 Flavoprotein; Region: Flavoprotein; cl08021 290318001588 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 290318001589 FMN binding site [chemical binding]; other site 290318001590 dimer interface [polypeptide binding]; other site 290318001591 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 290318001592 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 290318001593 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 290318001594 P loop; other site 290318001595 Nucleotide binding site [chemical binding]; other site 290318001596 DTAP/Switch II; other site 290318001597 Switch I; other site 290318001598 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 290318001599 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 290318001600 NAD binding site [chemical binding]; other site 290318001601 homotetramer interface [polypeptide binding]; other site 290318001602 homodimer interface [polypeptide binding]; other site 290318001603 substrate binding site [chemical binding]; other site 290318001604 active site 290318001605 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 290318001606 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 290318001607 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 290318001608 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290318001609 putative active site [active] 290318001610 metal binding site [ion binding]; metal-binding site 290318001611 homodimer binding site [polypeptide binding]; other site 290318001612 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 290318001613 AMP binding site [chemical binding]; other site 290318001614 metal binding site [ion binding]; metal-binding site 290318001615 active site 290318001616 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 290318001617 DHH family; Region: DHH; pfam01368 290318001618 DHHA1 domain; Region: DHHA1; pfam02272 290318001619 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 290318001620 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 290318001621 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 290318001622 Ligand binding site; other site 290318001623 Putative Catalytic site; other site 290318001624 DXD motif; other site 290318001625 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 290318001626 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 290318001627 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 290318001628 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 290318001629 active site 290318001630 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 290318001631 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 290318001632 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 290318001633 putative active site [active] 290318001634 putative substrate binding site [chemical binding]; other site 290318001635 putative cosubstrate binding site; other site 290318001636 catalytic site [active] 290318001637 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 290318001638 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 290318001639 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 290318001640 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 290318001641 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 290318001642 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 290318001643 G1 box; other site 290318001644 GTP/Mg2+ binding site [chemical binding]; other site 290318001645 Switch I region; other site 290318001646 G2 box; other site 290318001647 G3 box; other site 290318001648 Switch II region; other site 290318001649 G4 box; other site 290318001650 G5 box; other site 290318001651 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 290318001652 Nucleoside recognition; Region: Gate; pfam07670 290318001653 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 290318001654 FeoC like transcriptional regulator; Region: FeoC; pfam09012 290318001655 flavodoxin FldA; Validated; Region: PRK09267 290318001656 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 290318001657 Ferritin-like domain; Region: Ferritin; pfam00210 290318001658 ferroxidase diiron center [ion binding]; other site 290318001659 Protein of unknown function (DUF2023); Region: DUF2023; pfam09633 290318001660 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 290318001661 NADH(P)-binding; Region: NAD_binding_10; pfam13460 290318001662 NAD(P) binding site [chemical binding]; other site 290318001663 putative active site [active] 290318001664 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 290318001665 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290318001666 Walker A/P-loop; other site 290318001667 ATP binding site [chemical binding]; other site 290318001668 Q-loop/lid; other site 290318001669 ABC transporter signature motif; other site 290318001670 Walker B; other site 290318001671 D-loop; other site 290318001672 H-loop/switch region; other site 290318001673 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 290318001674 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290318001675 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290318001676 Walker A/P-loop; other site 290318001677 ATP binding site [chemical binding]; other site 290318001678 Q-loop/lid; other site 290318001679 ABC transporter signature motif; other site 290318001680 Walker B; other site 290318001681 D-loop; other site 290318001682 H-loop/switch region; other site 290318001683 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 290318001684 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 290318001685 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 290318001686 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 290318001687 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 290318001688 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 290318001689 purine nucleoside phosphorylase; Provisional; Region: PRK08202 290318001690 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 290318001691 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 290318001692 catalytic residue [active] 290318001693 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 290318001694 active site 290318001695 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 290318001696 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 290318001697 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 290318001698 active site 290318001699 lipoprotein signal peptidase; Provisional; Region: PRK14787 290318001700 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 290318001701 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 290318001702 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 290318001703 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 290318001704 shikimate binding site; other site 290318001705 NAD(P) binding site [chemical binding]; other site 290318001706 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 290318001707 binding surface 290318001708 TPR motif; other site 290318001709 TPR repeat; Region: TPR_11; pfam13414 290318001710 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 290318001711 binding surface 290318001712 TPR motif; other site 290318001713 TPR repeat; Region: TPR_11; pfam13414 290318001714 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 290318001715 binding surface 290318001716 TPR repeat; Region: TPR_11; pfam13414 290318001717 TPR motif; other site 290318001718 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 290318001719 binding surface 290318001720 TPR motif; other site 290318001721 TPR repeat; Region: TPR_11; pfam13414 290318001722 TPR repeat; Region: TPR_11; pfam13414 290318001723 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14671 290318001724 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 290318001725 GIY-YIG motif/motif A; other site 290318001726 active site 290318001727 catalytic site [active] 290318001728 putative DNA binding site [nucleotide binding]; other site 290318001729 metal binding site [ion binding]; metal-binding site 290318001730 UvrB/uvrC motif; Region: UVR; pfam02151 290318001731 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 290318001732 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 290318001733 DNA binding site [nucleotide binding] 290318001734 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 290318001735 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 290318001736 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 290318001737 Na binding site [ion binding]; other site 290318001738 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 290318001739 Domain of unknown function DUF302; Region: DUF302; pfam03625 290318001740 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 290318001741 nudix motif; other site 290318001742 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 290318001743 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 290318001744 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 290318001745 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 290318001746 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 290318001747 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290318001748 Walker A/P-loop; other site 290318001749 ATP binding site [chemical binding]; other site 290318001750 Q-loop/lid; other site 290318001751 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290318001752 ABC transporter; Region: ABC_tran_2; pfam12848 290318001753 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290318001754 Outer membrane efflux protein; Region: OEP; pfam02321 290318001755 Outer membrane efflux protein; Region: OEP; pfam02321 290318001756 HlyD family secretion protein; Region: HlyD_3; pfam13437 290318001757 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 290318001758 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290318001759 Walker A/P-loop; other site 290318001760 ATP binding site [chemical binding]; other site 290318001761 Q-loop/lid; other site 290318001762 ABC transporter signature motif; other site 290318001763 Walker B; other site 290318001764 D-loop; other site 290318001765 H-loop/switch region; other site 290318001766 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 290318001767 FtsX-like permease family; Region: FtsX; pfam02687 290318001768 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 290318001769 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 290318001770 CoA-ligase; Region: Ligase_CoA; pfam00549 290318001771 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 290318001772 nucleoside/Zn binding site; other site 290318001773 dimer interface [polypeptide binding]; other site 290318001774 catalytic motif [active] 290318001775 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 290318001776 FMN binding site [chemical binding]; other site 290318001777 substrate binding site [chemical binding]; other site 290318001778 putative catalytic residue [active] 290318001779 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 290318001780 catalytic core [active] 290318001781 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 290318001782 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 290318001783 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 290318001784 active site 290318001785 dimer interface [polypeptide binding]; other site 290318001786 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 290318001787 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 290318001788 active site 290318001789 FMN binding site [chemical binding]; other site 290318001790 substrate binding site [chemical binding]; other site 290318001791 3Fe-4S cluster binding site [ion binding]; other site 290318001792 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 290318001793 domain interface; other site 290318001794 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 290318001795 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290318001796 CO dehydrogenase beta subunit/acetyl-CoA synthase epsilon subunit; Region: CO_dh; cl00815 290318001797 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 290318001798 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 290318001799 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 290318001800 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 290318001801 Walker A motif; other site 290318001802 ATP binding site [chemical binding]; other site 290318001803 Walker B motif; other site 290318001804 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 290318001805 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 290318001806 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 290318001807 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 290318001808 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 290318001809 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 290318001810 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 290318001811 ATP binding site [chemical binding]; other site 290318001812 Walker A motif; other site 290318001813 hexamer interface [polypeptide binding]; other site 290318001814 Walker B motif; other site 290318001815 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 290318001816 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 290318001817 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 290318001818 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 290318001819 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 290318001820 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 290318001821 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 290318001822 TadE-like protein; Region: TadE; pfam07811 290318001823 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 290318001824 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 290318001825 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 290318001826 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 290318001827 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 290318001828 Flp/Fap pilin component; Region: Flp_Fap; pfam04964 290318001829 Cupin domain; Region: Cupin_2; pfam07883 290318001830 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 290318001831 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 290318001832 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 290318001833 Short repeat of unknown function (DUF308); Region: DUF308; pfam03729 290318001834 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 290318001835 DsbD alpha interface [polypeptide binding]; other site 290318001836 catalytic residues [active] 290318001837 ribonuclease R; Region: RNase_R; TIGR02063 290318001838 RNB domain; Region: RNB; pfam00773 290318001839 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 290318001840 RNA binding site [nucleotide binding]; other site 290318001841 photolyase PhrII; Region: phr2; TIGR00591 290318001842 DNA photolyase; Region: DNA_photolyase; pfam00875 290318001843 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 290318001844 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 290318001845 catalytic triad [active] 290318001846 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 290318001847 active site residue [active] 290318001848 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 290318001849 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 290318001850 Ion channel; Region: Ion_trans_2; pfam07885 290318001851 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 290318001852 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 290318001853 membrane-bound complex binding site; other site 290318001854 hinge residues; other site 290318001855 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 290318001856 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 290318001857 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290318001858 catalytic residue [active] 290318001859 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 290318001860 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290318001861 PGAP1-like protein; Region: PGAP1; pfam07819 290318001862 Rrf2 family protein; Region: rrf2_super; TIGR00738 290318001863 Transcriptional regulator; Region: Rrf2; pfam02082 290318001864 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 290318001865 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 290318001866 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 290318001867 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 290318001868 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 290318001869 oligomerisation interface [polypeptide binding]; other site 290318001870 mobile loop; other site 290318001871 roof hairpin; other site 290318001872 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 290318001873 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 290318001874 ring oligomerisation interface [polypeptide binding]; other site 290318001875 ATP/Mg binding site [chemical binding]; other site 290318001876 stacking interactions; other site 290318001877 hinge regions; other site 290318001878 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 290318001879 Ligand Binding Site [chemical binding]; other site 290318001880 CAAX protease self-immunity; Region: Abi; pfam02517 290318001881 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 290318001882 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 290318001883 substrate binding site [chemical binding]; other site 290318001884 active site 290318001885 catalytic residues [active] 290318001886 heterodimer interface [polypeptide binding]; other site 290318001887 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 290318001888 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 290318001889 Probable Catalytic site; other site 290318001890 metal-binding site 290318001891 cinnamyl-alcohol dehydrogenase family protein; Region: PLN02662 290318001892 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 290318001893 NADP binding site [chemical binding]; other site 290318001894 putative substrate binding site [chemical binding]; other site 290318001895 active site 290318001896 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 290318001897 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 290318001898 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 290318001899 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 290318001900 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 290318001901 Cation efflux family; Region: Cation_efflux; cl00316 290318001902 Cation efflux family; Region: Cation_efflux; cl00316 290318001903 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 290318001904 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 290318001905 rod shape-determining protein MreB; Provisional; Region: PRK13930 290318001906 MreB and similar proteins; Region: MreB_like; cd10225 290318001907 nucleotide binding site [chemical binding]; other site 290318001908 Mg binding site [ion binding]; other site 290318001909 putative protofilament interaction site [polypeptide binding]; other site 290318001910 RodZ interaction site [polypeptide binding]; other site 290318001911 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 290318001912 histidinol dehydrogenase; Region: hisD; TIGR00069 290318001913 NAD binding site [chemical binding]; other site 290318001914 dimerization interface [polypeptide binding]; other site 290318001915 product binding site; other site 290318001916 substrate binding site [chemical binding]; other site 290318001917 zinc binding site [ion binding]; other site 290318001918 catalytic residues [active] 290318001919 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 290318001920 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 290318001921 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 290318001922 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 290318001923 substrate binding site [chemical binding]; other site 290318001924 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 290318001925 substrate binding site [chemical binding]; other site 290318001926 ligand binding site [chemical binding]; other site 290318001927 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290318001928 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 290318001929 non-specific DNA binding site [nucleotide binding]; other site 290318001930 salt bridge; other site 290318001931 sequence-specific DNA binding site [nucleotide binding]; other site 290318001932 PAS domain S-box; Region: sensory_box; TIGR00229 290318001933 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 290318001934 putative active site [active] 290318001935 heme pocket [chemical binding]; other site 290318001936 GAF domain; Region: GAF_2; pfam13185 290318001937 PAP2_like_5 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_5; cd03394 290318001938 active site 290318001939 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 290318001940 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290318001941 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 290318001942 non-specific DNA binding site [nucleotide binding]; other site 290318001943 salt bridge; other site 290318001944 sequence-specific DNA binding site [nucleotide binding]; other site 290318001945 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 290318001946 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 290318001947 SLBB domain; Region: SLBB; pfam10531 290318001948 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 290318001949 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 290318001950 Chain length determinant protein; Region: Wzz; pfam02706 290318001951 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 290318001952 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 290318001953 Chain length determinant protein; Region: Wzz; cl15801 290318001954 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 290318001955 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 290318001956 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 290318001957 Mg++ binding site [ion binding]; other site 290318001958 putative catalytic motif [active] 290318001959 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 290318001960 active site 290318001961 DNA binding site [nucleotide binding] 290318001962 Int/Topo IB signature motif; other site 290318001963 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 290318001964 active site 290318001965 DNA binding site [nucleotide binding] 290318001966 Int/Topo IB signature motif; other site 290318001967 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 290318001968 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 290318001969 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 290318001970 Archaeal ATPase; Region: Arch_ATPase; pfam01637 290318001971 AAA domain; Region: AAA_14; pfam13173 290318001972 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 290318001973 Nuclease-related domain; Region: NERD; pfam08378 290318001974 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 290318001975 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 290318001976 NADP binding site [chemical binding]; other site 290318001977 active site 290318001978 putative substrate binding site [chemical binding]; other site 290318001979 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 290318001980 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 290318001981 NADP-binding site; other site 290318001982 homotetramer interface [polypeptide binding]; other site 290318001983 substrate binding site [chemical binding]; other site 290318001984 homodimer interface [polypeptide binding]; other site 290318001985 active site 290318001986 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290318001987 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290318001988 Walker A/P-loop; other site 290318001989 ATP binding site [chemical binding]; other site 290318001990 Q-loop/lid; other site 290318001991 ABC transporter signature motif; other site 290318001992 Walker B; other site 290318001993 D-loop; other site 290318001994 H-loop/switch region; other site 290318001995 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 290318001996 Transposase; Region: DDE_Tnp_ISL3; pfam01610 290318001997 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 290318001998 Transposase; Region: DDE_Tnp_ISL3; pfam01610 290318001999 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 290318002000 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 290318002001 GDP-Fucose binding site [chemical binding]; other site 290318002002 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290318002003 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 290318002004 NAD binding site [chemical binding]; other site 290318002005 putative substrate binding site 2 [chemical binding]; other site 290318002006 putative substrate binding site 1 [chemical binding]; other site 290318002007 active site 290318002008 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 290318002009 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 290318002010 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 290318002011 Active Sites [active] 290318002012 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 290318002013 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 290318002014 CysD dimerization site [polypeptide binding]; other site 290318002015 G1 box; other site 290318002016 putative GEF interaction site [polypeptide binding]; other site 290318002017 GTP/Mg2+ binding site [chemical binding]; other site 290318002018 Switch I region; other site 290318002019 G2 box; other site 290318002020 G3 box; other site 290318002021 Switch II region; other site 290318002022 G4 box; other site 290318002023 G5 box; other site 290318002024 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 290318002025 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 290318002026 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 290318002027 ligand-binding site [chemical binding]; other site 290318002028 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 290318002029 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 290318002030 active site 290318002031 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 290318002032 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 290318002033 TrkA-C domain; Region: TrkA_C; pfam02080 290318002034 TrkA-C domain; Region: TrkA_C; pfam02080 290318002035 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 290318002036 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 290318002037 ligand-binding site [chemical binding]; other site 290318002038 Predicted ATPase [General function prediction only]; Region: COG4637 290318002039 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290318002040 Walker A/P-loop; other site 290318002041 ATP binding site [chemical binding]; other site 290318002042 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 290318002043 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 290318002044 metal-binding site 290318002045 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 290318002046 DNA-binding interface [nucleotide binding]; DNA binding site 290318002047 Winged helix-turn helix; Region: HTH_29; pfam13551 290318002048 tRNA-specific 2-thiouridylase MnmA; Provisional; Region: mnmA; PRK14665 290318002049 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 290318002050 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 290318002051 active site 290318002052 Transposase; Region: HTH_Tnp_1; cl17663 290318002053 Winged helix-turn helix; Region: HTH_29; pfam13551 290318002054 Homeodomain-like domain; Region: HTH_32; pfam13565 290318002055 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 290318002056 Integrase core domain; Region: rve; pfam00665 290318002057 GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis; Region: GT2_AmsE_like; cd04195 290318002058 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 290318002059 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290318002060 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290318002061 NAD(P) binding site [chemical binding]; other site 290318002062 active site 290318002063 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 290318002064 Helix-turn-helix domain; Region: HTH_19; pfam12844 290318002065 non-specific DNA binding site [nucleotide binding]; other site 290318002066 salt bridge; other site 290318002067 sequence-specific DNA binding site [nucleotide binding]; other site 290318002068 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 290318002069 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 290318002070 RES domain; Region: RES; smart00953 290318002071 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 290318002072 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 290318002073 HipA-like N-terminal domain; Region: HipA_N; pfam07805 290318002074 HipA-like C-terminal domain; Region: HipA_C; pfam07804 290318002075 HipA N-terminal domain; Region: Couple_hipA; pfam13657 290318002076 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 290318002077 non-specific DNA binding site [nucleotide binding]; other site 290318002078 salt bridge; other site 290318002079 sequence-specific DNA binding site [nucleotide binding]; other site 290318002080 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 290318002081 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 290318002082 Fic family protein [Function unknown]; Region: COG3177 290318002083 Fic/DOC family; Region: Fic; pfam02661 290318002084 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 290318002085 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 290318002086 Transposase; Region: HTH_Tnp_1; cl17663 290318002087 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 290318002088 hypothetical protein; Provisional; Region: PRK10396 290318002089 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 290318002090 SEC-C motif; Region: SEC-C; pfam02810 290318002091 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 290318002092 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 290318002093 putative acyl-acceptor binding pocket; other site 290318002094 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290318002095 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290318002096 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 290318002097 Walker A/P-loop; other site 290318002098 ATP binding site [chemical binding]; other site 290318002099 Q-loop/lid; other site 290318002100 ABC transporter signature motif; other site 290318002101 Walker B; other site 290318002102 D-loop; other site 290318002103 H-loop/switch region; other site 290318002104 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 290318002105 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290318002106 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 290318002107 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290318002108 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290318002109 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 290318002110 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 290318002111 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 290318002112 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 290318002113 motif II; other site 290318002114 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 290318002115 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 290318002116 Ligand binding site; other site 290318002117 oligomer interface; other site 290318002118 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 290318002119 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 290318002120 active site 290318002121 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290318002122 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 290318002123 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 290318002124 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 290318002125 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 290318002126 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 290318002127 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 290318002128 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 290318002129 active site 290318002130 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 290318002131 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 290318002132 putative active site [active] 290318002133 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290318002134 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 290318002135 putative ADP-binding pocket [chemical binding]; other site 290318002136 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290318002137 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 290318002138 putative ADP-binding pocket [chemical binding]; other site 290318002139 hypothetical protein; Provisional; Region: PRK10345 290318002140 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290318002141 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 290318002142 putative ADP-binding pocket [chemical binding]; other site 290318002143 CAAX protease self-immunity; Region: Abi; pfam02517 290318002144 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 290318002145 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 290318002146 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 290318002147 active site 290318002148 phosphorylation site [posttranslational modification] 290318002149 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 290318002150 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 290318002151 dimer interface [polypeptide binding]; other site 290318002152 motif 1; other site 290318002153 active site 290318002154 motif 2; other site 290318002155 motif 3; other site 290318002156 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 290318002157 anticodon binding site; other site 290318002158 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 290318002159 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 290318002160 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 290318002161 dimer interface [polypeptide binding]; other site 290318002162 putative anticodon binding site; other site 290318002163 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 290318002164 motif 1; other site 290318002165 active site 290318002166 motif 2; other site 290318002167 motif 3; other site 290318002168 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 290318002169 active site lid residues [active] 290318002170 substrate binding pocket [chemical binding]; other site 290318002171 catalytic residues [active] 290318002172 substrate-Mg2+ binding site; other site 290318002173 aspartate-rich region 1; other site 290318002174 aspartate-rich region 2; other site 290318002175 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 290318002176 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 290318002177 HflX GTPase family; Region: HflX; cd01878 290318002178 G1 box; other site 290318002179 GTP/Mg2+ binding site [chemical binding]; other site 290318002180 Switch I region; other site 290318002181 G2 box; other site 290318002182 G3 box; other site 290318002183 Switch II region; other site 290318002184 G4 box; other site 290318002185 G5 box; other site 290318002186 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 290318002187 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 290318002188 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 290318002189 Putative zinc ribbon domain; Region: DUF164; pfam02591 290318002190 ribosomal protein L33; Region: rpl33; CHL00104 290318002191 diaminopimelate decarboxylase; Region: lysA; TIGR01048 290318002192 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 290318002193 active site 290318002194 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 290318002195 substrate binding site [chemical binding]; other site 290318002196 catalytic residues [active] 290318002197 dimer interface [polypeptide binding]; other site 290318002198 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 290318002199 FAD binding site [chemical binding]; other site 290318002200 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 290318002201 Competence protein; Region: Competence; pfam03772 290318002202 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 290318002203 dimer interface [polypeptide binding]; other site 290318002204 ADP-ribose binding site [chemical binding]; other site 290318002205 active site 290318002206 nudix motif; other site 290318002207 metal binding site [ion binding]; metal-binding site 290318002208 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 290318002209 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290318002210 dimer interface [polypeptide binding]; other site 290318002211 conserved gate region; other site 290318002212 putative PBP binding loops; other site 290318002213 ABC-ATPase subunit interface; other site 290318002214 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 290318002215 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 290318002216 5S rRNA interface [nucleotide binding]; other site 290318002217 CTC domain interface [polypeptide binding]; other site 290318002218 L16 interface [polypeptide binding]; other site 290318002219 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 290318002220 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 290318002221 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290318002222 active site 290318002223 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 290318002224 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 290318002225 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 290318002226 trimer interface [polypeptide binding]; other site 290318002227 active site 290318002228 UDP-GlcNAc binding site [chemical binding]; other site 290318002229 lipid binding site [chemical binding]; lipid-binding site 290318002230 SnoaL-like domain; Region: SnoaL_3; pfam13474 290318002231 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 290318002232 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 290318002233 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290318002234 ligand binding site [chemical binding]; other site 290318002235 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 290318002236 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 290318002237 FtsX-like permease family; Region: FtsX; pfam02687 290318002238 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 290318002239 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 290318002240 FtsX-like permease family; Region: FtsX; pfam02687 290318002241 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 290318002242 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290318002243 Walker A/P-loop; other site 290318002244 ATP binding site [chemical binding]; other site 290318002245 Q-loop/lid; other site 290318002246 ABC transporter signature motif; other site 290318002247 Walker B; other site 290318002248 D-loop; other site 290318002249 H-loop/switch region; other site 290318002250 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290318002251 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290318002252 HlyD family secretion protein; Region: HlyD_3; pfam13437 290318002253 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 290318002254 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 290318002255 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 290318002256 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 290318002257 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 290318002258 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 290318002259 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 290318002260 oligomerization interface [polypeptide binding]; other site 290318002261 active site 290318002262 metal binding site [ion binding]; metal-binding site 290318002263 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 290318002264 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 290318002265 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 290318002266 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 290318002267 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 290318002268 putative active site [active] 290318002269 catalytic triad [active] 290318002270 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 290318002271 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14954 290318002272 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 290318002273 Walker A motif; other site 290318002274 ATP binding site [chemical binding]; other site 290318002275 Walker B motif; other site 290318002276 arginine finger; other site 290318002277 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 290318002278 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 290318002279 Transposase; Region: DEDD_Tnp_IS110; pfam01548 290318002280 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 290318002281 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290318002282 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290318002283 HlyD family secretion protein; Region: HlyD_3; pfam13437 290318002284 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 290318002285 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 290318002286 ferredoxin-NADP reductase; Provisional; Region: PRK10926 290318002287 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 290318002288 FAD binding pocket [chemical binding]; other site 290318002289 FAD binding motif [chemical binding]; other site 290318002290 phosphate binding motif [ion binding]; other site 290318002291 beta-alpha-beta structure motif; other site 290318002292 NAD binding pocket [chemical binding]; other site 290318002293 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 290318002294 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 290318002295 Na binding site [ion binding]; other site 290318002296 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 290318002297 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 290318002298 methionine sulfoxide reductase A; Provisional; Region: PRK14054 290318002299 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 290318002300 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 290318002301 DNA binding residues [nucleotide binding] 290318002302 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 290318002303 zinc transporter ZupT; Provisional; Region: PRK04201 290318002304 ZIP Zinc transporter; Region: Zip; pfam02535 290318002305 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 290318002306 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 290318002307 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 290318002308 active site 290318002309 bacteriochlorophyll/chlorophyll a synthase; Reviewed; Region: PRK07566 290318002310 UbiA prenyltransferase family; Region: UbiA; pfam01040 290318002311 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 290318002312 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 290318002313 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 290318002314 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 290318002315 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 290318002316 PhoH-like protein; Region: PhoH; pfam02562 290318002317 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 290318002318 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 290318002319 NADP binding site [chemical binding]; other site 290318002320 homopentamer interface [polypeptide binding]; other site 290318002321 substrate binding site [chemical binding]; other site 290318002322 active site 290318002323 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 290318002324 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 290318002325 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 290318002326 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 290318002327 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290318002328 homodimer interface [polypeptide binding]; other site 290318002329 catalytic residue [active] 290318002330 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 290318002331 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 290318002332 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 290318002333 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290318002334 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 290318002335 putative active site [active] 290318002336 catalytic residue [active] 290318002337 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 290318002338 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 290318002339 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 290318002340 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 290318002341 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 290318002342 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 290318002343 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 290318002344 putative catalytic site [active] 290318002345 putative metal binding site [ion binding]; other site 290318002346 putative phosphate binding site [ion binding]; other site 290318002347 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 290318002348 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 290318002349 ATP binding site [chemical binding]; other site 290318002350 active site 290318002351 substrate binding site [chemical binding]; other site 290318002352 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 290318002353 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 290318002354 transketolase; Reviewed; Region: PRK05899 290318002355 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 290318002356 TPP-binding site [chemical binding]; other site 290318002357 dimer interface [polypeptide binding]; other site 290318002358 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 290318002359 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 290318002360 S-adenosylmethionine binding site [chemical binding]; other site 290318002361 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 290318002362 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 290318002363 active site 290318002364 (T/H)XGH motif; other site 290318002365 aspartate aminotransferase; Provisional; Region: PRK05764 290318002366 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 290318002367 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290318002368 homodimer interface [polypeptide binding]; other site 290318002369 catalytic residue [active] 290318002370 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 290318002371 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cd06551 290318002372 putative acyl-acceptor binding pocket; other site 290318002373 PSP1 C-terminal conserved region; Region: PSP1; pfam04468 290318002374 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 290318002375 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 290318002376 active site 290318002377 HIGH motif; other site 290318002378 KMSKS motif; other site 290318002379 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 290318002380 tRNA binding surface [nucleotide binding]; other site 290318002381 anticodon binding site; other site 290318002382 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 290318002383 dimer interface [polypeptide binding]; other site 290318002384 putative tRNA-binding site [nucleotide binding]; other site 290318002385 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 290318002386 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 290318002387 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 290318002388 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 290318002389 S-adenosylmethionine binding site [chemical binding]; other site 290318002390 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 290318002391 anti sigma factor interaction site; other site 290318002392 regulatory phosphorylation site [posttranslational modification]; other site 290318002393 Protein of unknown function, DUF481; Region: DUF481; pfam04338 290318002394 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 290318002395 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 290318002396 Maf-like protein; Region: Maf; pfam02545 290318002397 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 290318002398 active site 290318002399 dimer interface [polypeptide binding]; other site 290318002400 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 290318002401 Na binding site [ion binding]; other site 290318002402 Ribokinase-like subgroup C. Found only in bacteria, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_C; cd01946 290318002403 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290318002404 substrate binding site [chemical binding]; other site 290318002405 ATP binding site [chemical binding]; other site 290318002406 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 290318002407 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 290318002408 active site 290318002409 catalytic site [active] 290318002410 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 290318002411 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 290318002412 dimerization interface 3.5A [polypeptide binding]; other site 290318002413 active site 290318002414 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 290318002415 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290318002416 catalytic residue [active] 290318002417 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 290318002418 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 290318002419 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 290318002420 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 290318002421 P loop; other site 290318002422 Nucleotide binding site [chemical binding]; other site 290318002423 DTAP/Switch II; other site 290318002424 Switch I; other site 290318002425 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 290318002426 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 290318002427 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 290318002428 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 290318002429 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 290318002430 Nitrogen regulatory protein P-II; Region: P-II; smart00938 290318002431 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 290318002432 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 290318002433 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 290318002434 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 290318002435 active site 290318002436 dimer interface [polypeptide binding]; other site 290318002437 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 290318002438 dimer interface [polypeptide binding]; other site 290318002439 active site 290318002440 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 290318002441 ApbE family; Region: ApbE; pfam02424 290318002442 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 290318002443 electron transport complex RsxE subunit; Provisional; Region: PRK12405 290318002444 FMN-binding domain; Region: FMN_bind; cl01081 290318002445 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 290318002446 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 290318002447 SLBB domain; Region: SLBB; pfam10531 290318002448 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 290318002449 ferredoxin; Validated; Region: PRK07118 290318002450 Putative Fe-S cluster; Region: FeS; cl17515 290318002451 4Fe-4S binding domain; Region: Fer4; pfam00037 290318002452 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 290318002453 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 290318002454 adenylosuccinate lyase; Provisional; Region: PRK07492 290318002455 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 290318002456 tetramer interface [polypeptide binding]; other site 290318002457 active site 290318002458 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 290318002459 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 290318002460 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 290318002461 active site 290318002462 NTP binding site [chemical binding]; other site 290318002463 metal binding triad [ion binding]; metal-binding site 290318002464 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 290318002465 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290318002466 Zn2+ binding site [ion binding]; other site 290318002467 Mg2+ binding site [ion binding]; other site 290318002468 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290318002469 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290318002470 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 290318002471 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290318002472 putative substrate translocation pore; other site 290318002473 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 290318002474 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 290318002475 cobalamin binding residues [chemical binding]; other site 290318002476 putative BtuC binding residues; other site 290318002477 dimer interface [polypeptide binding]; other site 290318002478 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 290318002479 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 290318002480 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 290318002481 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 290318002482 ATP cone domain; Region: ATP-cone; pfam03477 290318002483 Class III ribonucleotide reductase; Region: RNR_III; cd01675 290318002484 effector binding site; other site 290318002485 active site 290318002486 Zn binding site [ion binding]; other site 290318002487 glycine loop; other site 290318002488 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 290318002489 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 290318002490 FeS/SAM binding site; other site 290318002491 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 290318002492 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 290318002493 catalytic triad [active] 290318002494 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 290318002495 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 290318002496 NAD(P) binding site [chemical binding]; other site 290318002497 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 290318002498 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 290318002499 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 290318002500 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 290318002501 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 290318002502 N-terminal plug; other site 290318002503 ligand-binding site [chemical binding]; other site 290318002504 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 290318002505 cobyric acid synthase; Provisional; Region: PRK00784 290318002506 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 290318002507 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 290318002508 catalytic triad [active] 290318002509 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 290318002510 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 290318002511 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290318002512 homodimer interface [polypeptide binding]; other site 290318002513 catalytic residue [active] 290318002514 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 290318002515 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 290318002516 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 290318002517 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 290318002518 ABC-ATPase subunit interface; other site 290318002519 dimer interface [polypeptide binding]; other site 290318002520 putative PBP binding regions; other site 290318002521 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 290318002522 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 290318002523 Walker A/P-loop; other site 290318002524 ATP binding site [chemical binding]; other site 290318002525 Q-loop/lid; other site 290318002526 ABC transporter signature motif; other site 290318002527 Walker B; other site 290318002528 D-loop; other site 290318002529 H-loop/switch region; other site 290318002530 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 290318002531 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 290318002532 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 290318002533 homotrimer interface [polypeptide binding]; other site 290318002534 Walker A motif; other site 290318002535 GTP binding site [chemical binding]; other site 290318002536 Walker B motif; other site 290318002537 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 290318002538 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 290318002539 putative dimer interface [polypeptide binding]; other site 290318002540 active site pocket [active] 290318002541 putative cataytic base [active] 290318002542 cobalamin synthase; Reviewed; Region: cobS; PRK00235 290318002543 OsmC-like protein; Region: OsmC; pfam02566 290318002544 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 290318002545 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 290318002546 gating phenylalanine in ion channel; other site 290318002547 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 290318002548 SET domain; Region: SET; pfam00856 290318002549 flavoprotein, HI0933 family; Region: TIGR00275 290318002550 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290318002551 Dicarboxylate transport; Region: DctA-YdbH; cl14674 290318002552 Dicarboxylate transport; Region: DctA-YdbH; cl14674 290318002553 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 290318002554 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 290318002555 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 290318002556 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 290318002557 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 290318002558 dimer interface [polypeptide binding]; other site 290318002559 FMN binding site [chemical binding]; other site 290318002560 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 290318002561 FAD binding domain; Region: FAD_binding_4; pfam01565 290318002562 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 290318002563 Domon-like domain of UDP-N-acetylenolpyruvoylglucosamine reductase; Region: DOMON_murB_like; cd09627 290318002564 putative heme binding site [chemical binding]; other site 290318002565 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 290318002566 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 290318002567 FAD binding pocket [chemical binding]; other site 290318002568 FAD binding motif [chemical binding]; other site 290318002569 phosphate binding motif [ion binding]; other site 290318002570 beta-alpha-beta structure motif; other site 290318002571 NAD binding pocket [chemical binding]; other site 290318002572 Iron coordination center [ion binding]; other site 290318002573 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 290318002574 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 290318002575 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 290318002576 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 290318002577 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 290318002578 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 290318002579 Cysteine-rich domain; Region: CCG; pfam02754 290318002580 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 290318002581 Cysteine-rich domain; Region: CCG; pfam02754 290318002582 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 290318002583 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 290318002584 aspartate aminotransferase; Provisional; Region: PRK08636 290318002585 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 290318002586 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290318002587 homodimer interface [polypeptide binding]; other site 290318002588 catalytic residue [active] 290318002589 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 290318002590 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 290318002591 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 290318002592 putative carbohydrate kinase; Provisional; Region: PRK10565 290318002593 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 290318002594 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 290318002595 putative substrate binding site [chemical binding]; other site 290318002596 putative ATP binding site [chemical binding]; other site 290318002597 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 290318002598 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 290318002599 dimerization interface [polypeptide binding]; other site 290318002600 ATP binding site [chemical binding]; other site 290318002601 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 290318002602 dimerization interface [polypeptide binding]; other site 290318002603 ATP binding site [chemical binding]; other site 290318002604 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12900 290318002605 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 290318002606 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 290318002607 nucleotide binding region [chemical binding]; other site 290318002608 ATP-binding site [chemical binding]; other site 290318002609 SEC-C motif; Region: SEC-C; pfam02810 290318002610 8-oxoguanine DNA-glycosylase (ogg); Region: ogg; TIGR00588 290318002611 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 290318002612 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 290318002613 minor groove reading motif; other site 290318002614 helix-hairpin-helix signature motif; other site 290318002615 substrate binding pocket [chemical binding]; other site 290318002616 active site 290318002617 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 290318002618 NADH(P)-binding; Region: NAD_binding_10; pfam13460 290318002619 NAD(P) binding site [chemical binding]; other site 290318002620 putative active site [active] 290318002621 lipoyl synthase; Provisional; Region: PRK05481 290318002622 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290318002623 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290318002624 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290318002625 HlyD family secretion protein; Region: HlyD_3; pfam13437 290318002626 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 290318002627 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 290318002628 Walker A/P-loop; other site 290318002629 ATP binding site [chemical binding]; other site 290318002630 Q-loop/lid; other site 290318002631 ABC transporter signature motif; other site 290318002632 Walker B; other site 290318002633 D-loop; other site 290318002634 H-loop/switch region; other site 290318002635 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 290318002636 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 290318002637 Walker A/P-loop; other site 290318002638 ATP binding site [chemical binding]; other site 290318002639 Q-loop/lid; other site 290318002640 ABC transporter signature motif; other site 290318002641 Walker B; other site 290318002642 D-loop; other site 290318002643 H-loop/switch region; other site 290318002644 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 290318002645 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 290318002646 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 290318002647 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 290318002648 ATP citrate (pro-S)-lyase; Region: PLN02522 290318002649 CoA binding domain; Region: CoA_binding; smart00881 290318002650 CoA-ligase; Region: Ligase_CoA; pfam00549 290318002651 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 290318002652 active site 290318002653 oxalacetate binding site [chemical binding]; other site 290318002654 citrylCoA binding site [chemical binding]; other site 290318002655 coenzyme A binding site [chemical binding]; other site 290318002656 catalytic triad [active] 290318002657 Succinyl-CoA synthetase, beta subunit [Energy production and conversion]; Region: SucC; COG0045 290318002658 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 290318002659 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 290318002660 heat shock protein HtpX; Provisional; Region: PRK05457 290318002661 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 290318002662 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 290318002663 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 290318002664 Walker A/P-loop; other site 290318002665 ATP binding site [chemical binding]; other site 290318002666 Q-loop/lid; other site 290318002667 ABC transporter signature motif; other site 290318002668 Walker B; other site 290318002669 D-loop; other site 290318002670 H-loop/switch region; other site 290318002671 putative acetyltransferase; Provisional; Region: PRK03624 290318002672 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290318002673 Coenzyme A binding pocket [chemical binding]; other site 290318002674 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 290318002675 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 290318002676 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 290318002677 FtsX-like permease family; Region: FtsX; pfam02687 290318002678 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290318002679 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290318002680 metal binding site [ion binding]; metal-binding site 290318002681 active site 290318002682 I-site; other site 290318002683 PBP superfamily domain; Region: PBP_like_2; pfam12849 290318002684 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 290318002685 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 290318002686 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 290318002687 heterotetramer interface [polypeptide binding]; other site 290318002688 active site pocket [active] 290318002689 cleavage site 290318002690 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 290318002691 feedback inhibition sensing region; other site 290318002692 homohexameric interface [polypeptide binding]; other site 290318002693 nucleotide binding site [chemical binding]; other site 290318002694 N-acetyl-L-glutamate binding site [chemical binding]; other site 290318002695 ornithine carbamoyltransferase; Provisional; Region: PRK00779 290318002696 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 290318002697 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 290318002698 Arginine repressor [Transcription]; Region: ArgR; COG1438 290318002699 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 290318002700 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 290318002701 argininosuccinate synthase; Provisional; Region: PRK13820 290318002702 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 290318002703 ANP binding site [chemical binding]; other site 290318002704 Substrate Binding Site II [chemical binding]; other site 290318002705 Substrate Binding Site I [chemical binding]; other site 290318002706 argininosuccinate lyase; Provisional; Region: PRK00855 290318002707 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 290318002708 active sites [active] 290318002709 tetramer interface [polypeptide binding]; other site 290318002710 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290318002711 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 290318002712 catalytic site [active] 290318002713 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 290318002714 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 290318002715 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290318002716 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 290318002717 active site 290318002718 phosphorylation site [posttranslational modification] 290318002719 intermolecular recognition site; other site 290318002720 dimerization interface [polypeptide binding]; other site 290318002721 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 290318002722 DNA binding site [nucleotide binding] 290318002723 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 290318002724 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 290318002725 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290318002726 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 290318002727 dimer interface [polypeptide binding]; other site 290318002728 phosphorylation site [posttranslational modification] 290318002729 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 290318002730 ATP binding site [chemical binding]; other site 290318002731 Mg2+ binding site [ion binding]; other site 290318002732 G-X-G motif; other site 290318002733 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 290318002734 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 290318002735 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 290318002736 intersubunit interface [polypeptide binding]; other site 290318002737 active site 290318002738 zinc binding site [ion binding]; other site 290318002739 Na+ binding site [ion binding]; other site 290318002740 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 290318002741 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 290318002742 metal binding site [ion binding]; metal-binding site 290318002743 dimer interface [polypeptide binding]; other site 290318002744 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 290318002745 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 290318002746 non-specific DNA binding site [nucleotide binding]; other site 290318002747 salt bridge; other site 290318002748 sequence-specific DNA binding site [nucleotide binding]; other site 290318002749 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 290318002750 Catalytic site [active] 290318002751 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; cd02205 290318002752 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 290318002753 polyphosphate kinase; Provisional; Region: PRK05443 290318002754 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 290318002755 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 290318002756 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 290318002757 putative domain interface [polypeptide binding]; other site 290318002758 putative active site [active] 290318002759 catalytic site [active] 290318002760 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 290318002761 putative domain interface [polypeptide binding]; other site 290318002762 putative active site [active] 290318002763 catalytic site [active] 290318002764 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 290318002765 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 290318002766 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 290318002767 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 290318002768 dihydroorotase; Validated; Region: pyrC; PRK09357 290318002769 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 290318002770 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 290318002771 active site 290318002772 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 290318002773 S-adenosylmethionine binding site [chemical binding]; other site 290318002774 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 290318002775 active site 290318002776 catalytic site [active] 290318002777 substrate binding site [chemical binding]; other site 290318002778 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 290318002779 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 290318002780 ligand binding site [chemical binding]; other site 290318002781 flexible hinge region; other site 290318002782 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 290318002783 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 290318002784 metal binding triad; other site 290318002785 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 290318002786 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 290318002787 putative NADP binding site [chemical binding]; other site 290318002788 putative substrate binding site [chemical binding]; other site 290318002789 active site 290318002790 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 290318002791 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 290318002792 ligand binding site [chemical binding]; other site 290318002793 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 290318002794 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 290318002795 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 290318002796 P-loop; other site 290318002797 Magnesium ion binding site [ion binding]; other site 290318002798 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 290318002799 Magnesium ion binding site [ion binding]; other site 290318002800 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 290318002801 substrate binding pocket [chemical binding]; other site 290318002802 membrane-bound complex binding site; other site 290318002803 hinge residues; other site 290318002804 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 290318002805 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290318002806 catalytic residue [active] 290318002807 Domain of unknown function (DUF389); Region: DUF389; pfam04087 290318002808 Uncharacterized conserved protein [Function unknown]; Region: COG1434 290318002809 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 290318002810 putative active site [active] 290318002811 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 290318002812 AAA domain; Region: AAA_30; pfam13604 290318002813 Family description; Region: UvrD_C_2; pfam13538 290318002814 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 290318002815 Part of AAA domain; Region: AAA_19; pfam13245 290318002816 Family description; Region: UvrD_C_2; pfam13538 290318002817 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 290318002818 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 290318002819 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 290318002820 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 290318002821 Sulfate transporter family; Region: Sulfate_transp; pfam00916 290318002822 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 290318002823 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 290318002824 Ligand Binding Site [chemical binding]; other site 290318002825 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 290318002826 Ligand Binding Site [chemical binding]; other site 290318002827 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 290318002828 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 290318002829 ATP binding site [chemical binding]; other site 290318002830 Mg++ binding site [ion binding]; other site 290318002831 motif III; other site 290318002832 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 290318002833 nucleotide binding region [chemical binding]; other site 290318002834 ATP-binding site [chemical binding]; other site 290318002835 RmuC family; Region: RmuC; pfam02646 290318002836 Fungal chitosanase of glycosyl hydrolase group 75; Region: Glyco_hydro_75; pfam07335 290318002837 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 290318002838 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 290318002839 active site 290318002840 NodB motif; other site 290318002841 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 290318002842 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 290318002843 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 290318002844 DXD motif; other site 290318002845 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 290318002846 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 290318002847 inhibitor-cofactor binding pocket; inhibition site 290318002848 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290318002849 catalytic residue [active] 290318002850 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 290318002851 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 290318002852 active site 290318002853 NAD binding site [chemical binding]; other site 290318002854 metal binding site [ion binding]; metal-binding site 290318002855 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 290318002856 ligand binding site; other site 290318002857 tetramer interface; other site 290318002858 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 290318002859 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 290318002860 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 290318002861 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 290318002862 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 290318002863 acyl-activating enzyme (AAE) consensus motif; other site 290318002864 putative AMP binding site [chemical binding]; other site 290318002865 putative active site [active] 290318002866 putative CoA binding site [chemical binding]; other site 290318002867 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 290318002868 endonuclease III; Region: ENDO3c; smart00478 290318002869 minor groove reading motif; other site 290318002870 helix-hairpin-helix signature motif; other site 290318002871 substrate binding pocket [chemical binding]; other site 290318002872 active site 290318002873 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 290318002874 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 290318002875 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 290318002876 RimM N-terminal domain; Region: RimM; pfam01782 290318002877 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 290318002878 signal recognition particle protein; Provisional; Region: PRK10867 290318002879 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 290318002880 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 290318002881 P loop; other site 290318002882 GTP binding site [chemical binding]; other site 290318002883 Signal peptide binding domain; Region: SRP_SPB; pfam02978 290318002884 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 290318002885 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290318002886 putative ribose interaction site [chemical binding]; other site 290318002887 putative ADP binding site [chemical binding]; other site 290318002888 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 290318002889 putative lipid binding site [chemical binding]; other site 290318002890 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 290318002891 putative lipid binding site [chemical binding]; other site 290318002892 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 290318002893 C-terminal peptidase (prc); Region: prc; TIGR00225 290318002894 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 290318002895 protein binding site [polypeptide binding]; other site 290318002896 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 290318002897 Catalytic dyad [active] 290318002898 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 290318002899 homotrimer interaction site [polypeptide binding]; other site 290318002900 putative active site [active] 290318002901 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 290318002902 thiamine phosphate binding site [chemical binding]; other site 290318002903 active site 290318002904 pyrophosphate binding site [ion binding]; other site 290318002905 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 290318002906 thiamine phosphate binding site [chemical binding]; other site 290318002907 active site 290318002908 pyrophosphate binding site [ion binding]; other site 290318002909 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 290318002910 dimer interface [polypeptide binding]; other site 290318002911 substrate binding site [chemical binding]; other site 290318002912 ATP binding site [chemical binding]; other site 290318002913 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 290318002914 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 290318002915 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 290318002916 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 290318002917 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290318002918 multifunctional aminopeptidase A; Provisional; Region: PRK00913 290318002919 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 290318002920 interface (dimer of trimers) [polypeptide binding]; other site 290318002921 Substrate-binding/catalytic site; other site 290318002922 Zn-binding sites [ion binding]; other site 290318002923 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 290318002924 DHH family; Region: DHH; pfam01368 290318002925 DHHA1 domain; Region: DHHA1; pfam02272 290318002926 Transcriptional regulators [Transcription]; Region: MarR; COG1846 290318002927 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 290318002928 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14456 290318002929 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 290318002930 FeS/SAM binding site; other site 290318002931 adenylate kinase; Reviewed; Region: adk; PRK00279 290318002932 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 290318002933 AMP-binding site [chemical binding]; other site 290318002934 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 290318002935 Helix-turn-helix domain; Region: HTH_20; pfam12840 290318002936 putative DNA binding site [nucleotide binding]; other site 290318002937 putative Zn2+ binding site [ion binding]; other site 290318002938 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 290318002939 primosomal protein N' Region: priA; TIGR00595 290318002940 ATP binding site [chemical binding]; other site 290318002941 putative Mg++ binding site [ion binding]; other site 290318002942 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 290318002943 ATP-binding site [chemical binding]; other site 290318002944 PAS domain S-box; Region: sensory_box; TIGR00229 290318002945 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 290318002946 putative active site [active] 290318002947 heme pocket [chemical binding]; other site 290318002948 GAF domain; Region: GAF_2; pfam13185 290318002949 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 290318002950 dimer interface [polypeptide binding]; other site 290318002951 phosphorylation site [posttranslational modification] 290318002952 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 290318002953 ATP binding site [chemical binding]; other site 290318002954 Mg2+ binding site [ion binding]; other site 290318002955 G-X-G motif; other site 290318002956 Response regulator receiver domain; Region: Response_reg; pfam00072 290318002957 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 290318002958 active site 290318002959 phosphorylation site [posttranslational modification] 290318002960 intermolecular recognition site; other site 290318002961 dimerization interface [polypeptide binding]; other site 290318002962 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 290318002963 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 290318002964 dimer interface [polypeptide binding]; other site 290318002965 active site 290318002966 metal binding site [ion binding]; metal-binding site 290318002967 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70); Region: 3a0801s09; TIGR00990 290318002968 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 290318002969 Dehydroquinase class II; Region: DHquinase_II; pfam01220 290318002970 trimer interface [polypeptide binding]; other site 290318002971 active site 290318002972 dimer interface [polypeptide binding]; other site 290318002973 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 290318002974 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 290318002975 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 290318002976 Walker A motif; other site 290318002977 ATP binding site [chemical binding]; other site 290318002978 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 290318002979 Walker B motif; other site 290318002980 arginine finger; other site 290318002981 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 290318002982 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 290318002983 active site 290318002984 HslU subunit interaction site [polypeptide binding]; other site 290318002985 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 290318002986 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 290318002987 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 290318002988 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 290318002989 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14174 290318002990 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 290318002991 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 290318002992 homodimer interface [polypeptide binding]; other site 290318002993 NADP binding site [chemical binding]; other site 290318002994 substrate binding site [chemical binding]; other site 290318002995 DNA repair protein RadA; Provisional; Region: PRK11823 290318002996 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 290318002997 Walker A motif/ATP binding site; other site 290318002998 ATP binding site [chemical binding]; other site 290318002999 Walker B motif; other site 290318003000 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 290318003001 Membrane protein of unknown function; Region: DUF360; pfam04020 290318003002 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 290318003003 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 290318003004 putative NAD(P) binding site [chemical binding]; other site 290318003005 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 290318003006 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290318003007 Walker A/P-loop; other site 290318003008 ATP binding site [chemical binding]; other site 290318003009 Q-loop/lid; other site 290318003010 ABC transporter signature motif; other site 290318003011 Walker B; other site 290318003012 D-loop; other site 290318003013 H-loop/switch region; other site 290318003014 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 290318003015 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290318003016 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 290318003017 TM-ABC transporter signature motif; other site 290318003018 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 290318003019 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 290318003020 Cl- selectivity filter; other site 290318003021 Cl- binding residues [ion binding]; other site 290318003022 pore gating glutamate residue; other site 290318003023 dimer interface [polypeptide binding]; other site 290318003024 FOG: CBS domain [General function prediction only]; Region: COG0517 290318003025 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 290318003026 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 290318003027 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 290318003028 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 290318003029 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 290318003030 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 290318003031 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 290318003032 substrate binding pocket [chemical binding]; other site 290318003033 chain length determination region; other site 290318003034 substrate-Mg2+ binding site; other site 290318003035 catalytic residues [active] 290318003036 aspartate-rich region 1; other site 290318003037 active site lid residues [active] 290318003038 aspartate-rich region 2; other site 290318003039 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 290318003040 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 290318003041 dephospho-CoA kinase; Provisional; Region: coaE; PRK14731 290318003042 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 290318003043 CoA-binding site [chemical binding]; other site 290318003044 ATP-binding [chemical binding]; other site 290318003045 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 290318003046 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 290318003047 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 290318003048 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 290318003049 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 290318003050 PUA domain; Region: PUA; cl00607 290318003051 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 290318003052 putative RNA binding site [nucleotide binding]; other site 290318003053 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 290318003054 S-adenosylmethionine binding site [chemical binding]; other site 290318003055 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; pfam06941 290318003056 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 290318003057 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 290318003058 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 290318003059 PAS fold; Region: PAS; pfam00989 290318003060 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 290318003061 putative active site [active] 290318003062 heme pocket [chemical binding]; other site 290318003063 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 290318003064 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290318003065 dimer interface [polypeptide binding]; other site 290318003066 phosphorylation site [posttranslational modification] 290318003067 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 290318003068 ATP binding site [chemical binding]; other site 290318003069 Mg2+ binding site [ion binding]; other site 290318003070 G-X-G motif; other site 290318003071 Response regulator receiver domain; Region: Response_reg; pfam00072 290318003072 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 290318003073 active site 290318003074 phosphorylation site [posttranslational modification] 290318003075 intermolecular recognition site; other site 290318003076 dimerization interface [polypeptide binding]; other site 290318003077 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 290318003078 Transposase; Region: DDE_Tnp_ISL3; pfam01610 290318003079 HTH domain; Region: HTH_11; pfam08279 290318003080 WYL domain; Region: WYL; pfam13280 290318003081 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 290318003082 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 290318003083 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 290318003084 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 290318003085 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 290318003086 motif II; other site 290318003087 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 290318003088 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 290318003089 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 290318003090 FAD binding domain; Region: FAD_binding_4; pfam01565 290318003091 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 290318003092 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 290318003093 Cysteine-rich domain; Region: CCG; pfam02754 290318003094 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 290318003095 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 290318003096 active site 290318003097 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290318003098 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 290318003099 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290318003100 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 290318003101 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290318003102 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 290318003103 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290318003104 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290318003105 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 290318003106 DoxX-like family; Region: DoxX_3; pfam13781 290318003107 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 290318003108 PhoU domain; Region: PhoU; pfam01895 290318003109 PhoU domain; Region: PhoU; pfam01895 290318003110 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 290318003111 PhoU domain; Region: PhoU; pfam01895 290318003112 PhoU domain; Region: PhoU; pfam01895 290318003113 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14275 290318003114 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 290318003115 Walker A/P-loop; other site 290318003116 ATP binding site [chemical binding]; other site 290318003117 Q-loop/lid; other site 290318003118 ABC transporter signature motif; other site 290318003119 Walker B; other site 290318003120 D-loop; other site 290318003121 H-loop/switch region; other site 290318003122 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 290318003123 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290318003124 dimer interface [polypeptide binding]; other site 290318003125 conserved gate region; other site 290318003126 putative PBP binding loops; other site 290318003127 ABC-ATPase subunit interface; other site 290318003128 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 290318003129 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290318003130 conserved gate region; other site 290318003131 putative PBP binding loops; other site 290318003132 ABC-ATPase subunit interface; other site 290318003133 PBP superfamily domain; Region: PBP_like_2; cl17296 290318003134 PBP superfamily domain; Region: PBP_like_2; cl17296 290318003135 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 290318003136 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 290318003137 putative acyl-acceptor binding pocket; other site 290318003138 Methyltransferase domain; Region: Methyltransf_23; pfam13489 290318003139 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 290318003140 S-adenosylmethionine binding site [chemical binding]; other site 290318003141 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 290318003142 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 290318003143 active site 290318003144 motif I; other site 290318003145 motif II; other site 290318003146 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 290318003147 putative active site [active] 290318003148 putative metal binding site [ion binding]; other site 290318003149 Polymerase and Histidinol Phosphatase domain of Thermotoga like; Region: PHP_HisPPase_Thermotoga_like; cd12111 290318003150 PHP domain; Region: PHP; pfam02811 290318003151 active site 290318003152 dimer interface [polypeptide binding]; other site 290318003153 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 290318003154 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 290318003155 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 290318003156 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 290318003157 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 290318003158 active site 290318003159 phosphorylation site [posttranslational modification] 290318003160 intermolecular recognition site; other site 290318003161 dimerization interface [polypeptide binding]; other site 290318003162 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 290318003163 Walker A motif; other site 290318003164 ATP binding site [chemical binding]; other site 290318003165 Walker B motif; other site 290318003166 arginine finger; other site 290318003167 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290318003168 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 290318003169 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290318003170 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290318003171 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 290318003172 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 290318003173 catalytic residues [active] 290318003174 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 290318003175 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 290318003176 active site 290318003177 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 290318003178 generic binding surface II; other site 290318003179 generic binding surface I; other site 290318003180 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 290318003181 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290318003182 putative ADP-binding pocket [chemical binding]; other site 290318003183 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 290318003184 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 290318003185 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 290318003186 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 290318003187 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 290318003188 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 290318003189 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 290318003190 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 290318003191 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 290318003192 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 290318003193 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 290318003194 active site 290318003195 catalytic residues [active] 290318003196 metal binding site [ion binding]; metal-binding site 290318003197 homodimer binding site [polypeptide binding]; other site 290318003198 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 290318003199 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 290318003200 carboxyltransferase (CT) interaction site; other site 290318003201 biotinylation site [posttranslational modification]; other site 290318003202 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 290318003203 Fumarase C-terminus; Region: Fumerase_C; pfam05683 290318003204 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 290318003205 Ligand Binding Site [chemical binding]; other site 290318003206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 290318003207 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 290318003208 AAA domain; Region: AAA_33; pfam13671 290318003209 active site 290318003210 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 290318003211 diiron binding motif [ion binding]; other site 290318003212 CCC1-related domain of ferritin; Region: Ferritin_CCC1_C; cd02431 290318003213 heat shock protein 90; Provisional; Region: PRK05218 290318003214 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 290318003215 ATP binding site [chemical binding]; other site 290318003216 Mg2+ binding site [ion binding]; other site 290318003217 G-X-G motif; other site 290318003218 NeuB family; Region: NeuB; pfam03102 290318003219 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 290318003220 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 290318003221 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 290318003222 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 290318003223 dimer interface [polypeptide binding]; other site 290318003224 substrate binding site [chemical binding]; other site 290318003225 metal binding sites [ion binding]; metal-binding site 290318003226 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 290318003227 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 290318003228 G1 box; other site 290318003229 putative GEF interaction site [polypeptide binding]; other site 290318003230 GTP/Mg2+ binding site [chemical binding]; other site 290318003231 Switch I region; other site 290318003232 G2 box; other site 290318003233 G3 box; other site 290318003234 Switch II region; other site 290318003235 G4 box; other site 290318003236 G5 box; other site 290318003237 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 290318003238 PAS domain S-box; Region: sensory_box; TIGR00229 290318003239 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290318003240 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 290318003241 dimer interface [polypeptide binding]; other site 290318003242 phosphorylation site [posttranslational modification] 290318003243 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 290318003244 ATP binding site [chemical binding]; other site 290318003245 Mg2+ binding site [ion binding]; other site 290318003246 G-X-G motif; other site 290318003247 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 290318003248 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 290318003249 active site 290318003250 phosphorylation site [posttranslational modification] 290318003251 intermolecular recognition site; other site 290318003252 dimerization interface [polypeptide binding]; other site 290318003253 phytoene desaturase; Region: phytoene_desat; TIGR02731 290318003254 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290318003255 recombination protein RecR; Reviewed; Region: recR; PRK00076 290318003256 RecR protein; Region: RecR; pfam02132 290318003257 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 290318003258 putative active site [active] 290318003259 putative metal-binding site [ion binding]; other site 290318003260 tetramer interface [polypeptide binding]; other site 290318003261 hypothetical protein; Provisional; Region: PRK14621 290318003262 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 290318003263 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 290318003264 PYR/PP interface [polypeptide binding]; other site 290318003265 dimer interface [polypeptide binding]; other site 290318003266 TPP binding site [chemical binding]; other site 290318003267 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 290318003268 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 290318003269 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 290318003270 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 290318003271 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290318003272 dimer interface [polypeptide binding]; other site 290318003273 substrate binding site [chemical binding]; other site 290318003274 metal binding site [ion binding]; metal-binding site 290318003275 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 290318003276 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 290318003277 heterodimer interface [polypeptide binding]; other site 290318003278 substrate interaction site [chemical binding]; other site 290318003279 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 290318003280 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 290318003281 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 290318003282 active site 290318003283 substrate binding site [chemical binding]; other site 290318003284 coenzyme B12 binding site [chemical binding]; other site 290318003285 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 290318003286 B12 binding site [chemical binding]; other site 290318003287 cobalt ligand [ion binding]; other site 290318003288 membrane ATPase/protein kinase; Provisional; Region: PRK09435 290318003289 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 290318003290 Walker A; other site 290318003291 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 290318003292 Ligand Binding Site [chemical binding]; other site 290318003293 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 290318003294 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 290318003295 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 290318003296 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 290318003297 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290318003298 NAD(P) binding site [chemical binding]; other site 290318003299 active site 290318003300 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 290318003301 thymidylate kinase; Validated; Region: tmk; PRK00698 290318003302 TMP-binding site; other site 290318003303 ATP-binding site [chemical binding]; other site 290318003304 phosphoglycolate phosphatase; Provisional; Region: PRK01158 290318003305 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 290318003306 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 290318003307 motif II; other site 290318003308 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 290318003309 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 290318003310 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 290318003311 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 290318003312 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 290318003313 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 290318003314 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 290318003315 substrate binding site; other site 290318003316 dimer interface; other site 290318003317 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 290318003318 CoenzymeA binding site [chemical binding]; other site 290318003319 subunit interaction site [polypeptide binding]; other site 290318003320 PHB binding site; other site 290318003321 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 290318003322 B12 binding site [chemical binding]; other site 290318003323 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 290318003324 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 290318003325 FeS/SAM binding site; other site 290318003326 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 290318003327 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 290318003328 dimer interface [polypeptide binding]; other site 290318003329 anticodon binding site; other site 290318003330 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 290318003331 homodimer interface [polypeptide binding]; other site 290318003332 motif 1; other site 290318003333 active site 290318003334 motif 2; other site 290318003335 GAD domain; Region: GAD; pfam02938 290318003336 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 290318003337 active site 290318003338 motif 3; other site 290318003339 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 290318003340 Transposase; Region: DEDD_Tnp_IS110; pfam01548 290318003341 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 290318003342 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 290318003343 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 290318003344 active site 290318003345 DNA binding site [nucleotide binding] 290318003346 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 290318003347 S-adenosylmethionine binding site [chemical binding]; other site 290318003348 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 290318003349 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 290318003350 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 290318003351 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 290318003352 active site 290318003353 magnesium chelatase, H subunit; Region: BchH; TIGR02025 290318003354 Domain of unknown function (DUF3479); Region: DUF3479; pfam11965 290318003355 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 290318003356 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 290318003357 magnesium chelatase ATPase subunit D; Region: BchD-ChlD; TIGR02031 290318003358 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 290318003359 metal ion-dependent adhesion site (MIDAS); other site 290318003360 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 290318003361 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 290318003362 Walker A motif; other site 290318003363 ATP binding site [chemical binding]; other site 290318003364 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 290318003365 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290318003366 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 290318003367 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 290318003368 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 290318003369 RNA binding surface [nucleotide binding]; other site 290318003370 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 290318003371 active site 290318003372 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 290318003373 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 290318003374 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 290318003375 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290318003376 Walker A/P-loop; other site 290318003377 ATP binding site [chemical binding]; other site 290318003378 Q-loop/lid; other site 290318003379 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290318003380 ABC transporter signature motif; other site 290318003381 Walker B; other site 290318003382 D-loop; other site 290318003383 ABC transporter; Region: ABC_tran_2; pfam12848 290318003384 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290318003385 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 290318003386 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 290318003387 FeS/SAM binding site; other site 290318003388 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 290318003389 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 290318003390 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 290318003391 Predicted integral membrane protein [Function unknown]; Region: COG5652 290318003392 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 290318003393 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290318003394 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 290318003395 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 290318003396 active site 290318003397 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 290318003398 O-Antigen ligase; Region: Wzy_C; pfam04932 290318003399 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 290318003400 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 290318003401 putative active site [active] 290318003402 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 290318003403 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 290318003404 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 290318003405 Bacterial sugar transferase; Region: Bac_transf; pfam02397 290318003406 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 290318003407 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 290318003408 SLBB domain; Region: SLBB; pfam10531 290318003409 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 290318003410 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 290318003411 catalytic residues [active] 290318003412 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 290318003413 active site 290318003414 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 290318003415 homodecamer interface [polypeptide binding]; other site 290318003416 GTP cyclohydrolase I; Provisional; Region: PLN03044 290318003417 active site 290318003418 putative catalytic site residues [active] 290318003419 zinc binding site [ion binding]; other site 290318003420 GTP-CH-I/GFRP interaction surface; other site 290318003421 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 290318003422 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290318003423 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 290318003424 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290318003425 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 290318003426 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 290318003427 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290318003428 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 290318003429 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 290318003430 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 290318003431 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 290318003432 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 290318003433 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 290318003434 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 290318003435 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 290318003436 NADH dehydrogenase subunit D; Validated; Region: PRK06075 290318003437 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 290318003438 NADH dehydrogenase subunit B; Provisional; Region: PRK14813 290318003439 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 290318003440 TPR repeat; Region: TPR_11; pfam13414 290318003441 TPR repeat; Region: TPR_11; pfam13414 290318003442 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 290318003443 binding surface 290318003444 TPR motif; other site 290318003445 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 290318003446 binding surface 290318003447 TPR repeat; Region: TPR_11; pfam13414 290318003448 TPR motif; other site 290318003449 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 290318003450 Ferrochelatase; Region: Ferrochelatase; pfam00762 290318003451 active site 290318003452 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 290318003453 active site 290318003454 N-terminal domain interface [polypeptide binding]; other site 290318003455 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 290318003456 nucleotide binding site/active site [active] 290318003457 HIT family signature motif; other site 290318003458 catalytic residue [active] 290318003459 Methyltransferase domain; Region: Methyltransf_23; pfam13489 290318003460 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 290318003461 S-adenosylmethionine binding site [chemical binding]; other site 290318003462 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 290318003463 recombination factor protein RarA; Reviewed; Region: PRK13342 290318003464 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 290318003465 Walker A motif; other site 290318003466 ATP binding site [chemical binding]; other site 290318003467 Walker B motif; other site 290318003468 arginine finger; other site 290318003469 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 290318003470 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 290318003471 Lumazine binding domain; Region: Lum_binding; pfam00677 290318003472 Lumazine binding domain; Region: Lum_binding; pfam00677 290318003473 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 290318003474 dimer interface [polypeptide binding]; other site 290318003475 catalytic triad [active] 290318003476 peroxidatic and resolving cysteines [active] 290318003477 DoxX; Region: DoxX; pfam07681 290318003478 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 290318003479 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 290318003480 catalytic motif [active] 290318003481 Zn binding site [ion binding]; other site 290318003482 RibD C-terminal domain; Region: RibD_C; cl17279 290318003483 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 290318003484 catalytic motif [active] 290318003485 Zn binding site [ion binding]; other site 290318003486 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 290318003487 Domain of unknown function (DUF814); Region: DUF814; pfam05670 290318003488 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 290318003489 Predicted permeases [General function prediction only]; Region: COG0795 290318003490 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 290318003491 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 290318003492 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 290318003493 putative active site pocket [active] 290318003494 4-fold oligomerization interface [polypeptide binding]; other site 290318003495 metal binding residues [ion binding]; metal-binding site 290318003496 3-fold/trimer interface [polypeptide binding]; other site 290318003497 phosphodiesterase; Provisional; Region: PRK12704 290318003498 KH domain; Region: KH_1; pfam00013 290318003499 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290318003500 Zn2+ binding site [ion binding]; other site 290318003501 Mg2+ binding site [ion binding]; other site 290318003502 Cell division protein ZapA; Region: ZapA; pfam05164 290318003503 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 290318003504 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 290318003505 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 290318003506 putative tRNA-binding site [nucleotide binding]; other site 290318003507 B3/4 domain; Region: B3_4; pfam03483 290318003508 tRNA synthetase B5 domain; Region: B5; pfam03484 290318003509 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 290318003510 dimer interface [polypeptide binding]; other site 290318003511 motif 1; other site 290318003512 motif 3; other site 290318003513 motif 2; other site 290318003514 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 290318003515 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 290318003516 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 290318003517 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290318003518 HlyD family secretion protein; Region: HlyD_3; pfam13437 290318003519 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_9; cd04666 290318003520 nudix motif; other site 290318003521 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 290318003522 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 290318003523 active site 290318003524 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 290318003525 S-adenosylmethionine synthetase; Validated; Region: PRK05250 290318003526 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 290318003527 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 290318003528 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 290318003529 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 290318003530 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 290318003531 homotetramer interface [polypeptide binding]; other site 290318003532 ligand binding site [chemical binding]; other site 290318003533 catalytic site [active] 290318003534 NAD binding site [chemical binding]; other site 290318003535 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 290318003536 active site 290318003537 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290318003538 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 290318003539 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 290318003540 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 290318003541 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 290318003542 TrkA-N domain; Region: TrkA_N; pfam02254 290318003543 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 290318003544 putative transporter; Provisional; Region: PRK11660 290318003545 Sulfate transporter family; Region: Sulfate_transp; pfam00916 290318003546 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 290318003547 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 290318003548 trimer interface [polypeptide binding]; other site 290318003549 putative Zn binding site [ion binding]; other site 290318003550 Protein of unknown function DUF45; Region: DUF45; pfam01863 290318003551 exonuclease SbcC; Region: sbcc; TIGR00618 290318003552 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290318003553 Walker A/P-loop; other site 290318003554 ATP binding site [chemical binding]; other site 290318003555 Q-loop/lid; other site 290318003556 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290318003557 ABC transporter signature motif; other site 290318003558 Walker B; other site 290318003559 D-loop; other site 290318003560 H-loop/switch region; other site 290318003561 Virulence protein [General function prediction only]; Region: COG3943 290318003562 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 290318003563 exonuclease subunit SbcD; Provisional; Region: PRK10966 290318003564 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 290318003565 active site 290318003566 metal binding site [ion binding]; metal-binding site 290318003567 DNA binding site [nucleotide binding] 290318003568 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 290318003569 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional; Region: PRK14495 290318003570 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 290318003571 Low molecular weight phosphatase family; Region: LMWPc; cd00115 290318003572 active site 290318003573 Fic family protein [Function unknown]; Region: COG3177 290318003574 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 290318003575 Fic/DOC family; Region: Fic; pfam02661 290318003576 SnoaL-like domain; Region: SnoaL_2; pfam12680 290318003577 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 290318003578 Virulence protein [General function prediction only]; Region: COG3943 290318003579 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 290318003580 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 290318003581 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 290318003582 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 290318003583 catalytic triad [active] 290318003584 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 290318003585 nudix motif; other site 290318003586 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 290318003587 Mechanosensitive ion channel; Region: MS_channel; pfam00924 290318003588 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 290318003589 dimerization interface [polypeptide binding]; other site 290318003590 PAS domain; Region: PAS; smart00091 290318003591 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 290318003592 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 290318003593 dimer interface [polypeptide binding]; other site 290318003594 phosphorylation site [posttranslational modification] 290318003595 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 290318003596 ATP binding site [chemical binding]; other site 290318003597 Mg2+ binding site [ion binding]; other site 290318003598 G-X-G motif; other site 290318003599 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290318003600 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 290318003601 active site 290318003602 phosphorylation site [posttranslational modification] 290318003603 intermolecular recognition site; other site 290318003604 dimerization interface [polypeptide binding]; other site 290318003605 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 290318003606 DNA binding site [nucleotide binding] 290318003607 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 290318003608 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290318003609 Walker A/P-loop; other site 290318003610 ATP binding site [chemical binding]; other site 290318003611 Q-loop/lid; other site 290318003612 ABC transporter signature motif; other site 290318003613 Walker B; other site 290318003614 D-loop; other site 290318003615 H-loop/switch region; other site 290318003616 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 290318003617 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 290318003618 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 290318003619 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 290318003620 ATP binding site [chemical binding]; other site 290318003621 putative Mg++ binding site [ion binding]; other site 290318003622 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 290318003623 nucleotide binding region [chemical binding]; other site 290318003624 ATP-binding site [chemical binding]; other site 290318003625 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 290318003626 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 290318003627 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 290318003628 catalytic loop [active] 290318003629 iron binding site [ion binding]; other site 290318003630 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 290318003631 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 290318003632 catalytic loop [active] 290318003633 iron binding site [ion binding]; other site 290318003634 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 290318003635 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 290318003636 hexamer interface [polypeptide binding]; other site 290318003637 ligand binding site [chemical binding]; other site 290318003638 putative active site [active] 290318003639 NAD(P) binding site [chemical binding]; other site 290318003640 carotene isomerase; Region: carot_isom; TIGR02730 290318003641 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290318003642 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 290318003643 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290318003644 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 290318003645 DNA binding residues [nucleotide binding] 290318003646 Putative zinc-finger; Region: zf-HC2; pfam13490 290318003647 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 290318003648 dimerization interface [polypeptide binding]; other site 290318003649 putative DNA binding site [nucleotide binding]; other site 290318003650 putative Zn2+ binding site [ion binding]; other site 290318003651 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 290318003652 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 290318003653 putative dimer interface [polypeptide binding]; other site 290318003654 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 290318003655 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 290318003656 nucleotide binding site [chemical binding]; other site 290318003657 NEF interaction site [polypeptide binding]; other site 290318003658 SBD interface [polypeptide binding]; other site 290318003659 Photosystem P840 reaction centre protein PscD; Region: RC-P840_PscD; pfam10657 290318003660 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 290318003661 non-specific DNA binding site [nucleotide binding]; other site 290318003662 salt bridge; other site 290318003663 sequence-specific DNA binding site [nucleotide binding]; other site 290318003664 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 290318003665 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 290318003666 Tetratricopeptide repeat; Region: TPR_6; pfam13174 290318003667 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 290318003668 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290318003669 ligand binding site [chemical binding]; other site 290318003670 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290318003671 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 290318003672 ligand binding site [chemical binding]; other site 290318003673 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 290318003674 TolB amino-terminal domain; Region: TolB_N; pfam04052 290318003675 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 290318003676 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 290318003677 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 290318003678 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 290318003679 TonB C terminal; Region: TonB_2; pfam13103 290318003680 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 290318003681 TolR protein; Region: tolR; TIGR02801 290318003682 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 290318003683 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 290318003684 Integral membrane protein DUF92; Region: DUF92; pfam01940 290318003685 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 290318003686 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 290318003687 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 290318003688 PYR/PP interface [polypeptide binding]; other site 290318003689 dimer interface [polypeptide binding]; other site 290318003690 TPP binding site [chemical binding]; other site 290318003691 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 290318003692 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 290318003693 TPP-binding site [chemical binding]; other site 290318003694 dimer interface [polypeptide binding]; other site 290318003695 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 290318003696 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 290318003697 putative valine binding site [chemical binding]; other site 290318003698 dimer interface [polypeptide binding]; other site 290318003699 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 290318003700 ketol-acid reductoisomerase; Provisional; Region: PRK05479 290318003701 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 290318003702 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 290318003703 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 290318003704 tartrate dehydrogenase; Region: TTC; TIGR02089 290318003705 2-isopropylmalate synthase; Validated; Region: PRK00915 290318003706 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 290318003707 active site 290318003708 catalytic residues [active] 290318003709 metal binding site [ion binding]; metal-binding site 290318003710 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 290318003711 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 290318003712 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 290318003713 substrate binding site [chemical binding]; other site 290318003714 ligand binding site [chemical binding]; other site 290318003715 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 290318003716 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 290318003717 substrate binding site [chemical binding]; other site 290318003718 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 290318003719 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 290318003720 active site 290318003721 catalytic residues [active] 290318003722 metal binding site [ion binding]; metal-binding site 290318003723 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 290318003724 hypothetical protein; Reviewed; Region: PRK00024 290318003725 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 290318003726 MPN+ (JAMM) motif; other site 290318003727 Zinc-binding site [ion binding]; other site 290318003728 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 290318003729 DNA-binding site [nucleotide binding]; DNA binding site 290318003730 RNA-binding motif; other site 290318003731 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 290318003732 classical (c) SDRs; Region: SDR_c; cd05233 290318003733 NAD(P) binding site [chemical binding]; other site 290318003734 active site 290318003735 Yqey-like protein; Region: YqeY; pfam09424 290318003736 seryl-tRNA synthetase; Provisional; Region: PRK05431 290318003737 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 290318003738 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 290318003739 dimer interface [polypeptide binding]; other site 290318003740 active site 290318003741 motif 1; other site 290318003742 motif 2; other site 290318003743 motif 3; other site 290318003744 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 290318003745 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 290318003746 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 290318003747 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 290318003748 homodimer interface [polypeptide binding]; other site 290318003749 substrate-cofactor binding pocket; other site 290318003750 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290318003751 catalytic residue [active] 290318003752 16S rRNA methyltransferase B; Provisional; Region: PRK14904 290318003753 NusB family; Region: NusB; pfam01029 290318003754 putative RNA binding site [nucleotide binding]; other site 290318003755 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 290318003756 S-adenosylmethionine binding site [chemical binding]; other site 290318003757 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 290318003758 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 290318003759 active site 290318003760 Int/Topo IB signature motif; other site 290318003761 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 290318003762 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 290318003763 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290318003764 Beta-Casp domain; Region: Beta-Casp; smart01027 290318003765 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 290318003766 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 290318003767 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 290318003768 ATP binding site [chemical binding]; other site 290318003769 Mg++ binding site [ion binding]; other site 290318003770 motif III; other site 290318003771 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 290318003772 nucleotide binding region [chemical binding]; other site 290318003773 ATP-binding site [chemical binding]; other site 290318003774 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 290318003775 putative RNA binding site [nucleotide binding]; other site 290318003776 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 290318003777 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 290318003778 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 290318003779 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 290318003780 DNA binding residues [nucleotide binding] 290318003781 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 290318003782 metal binding site 2 [ion binding]; metal-binding site 290318003783 putative DNA binding helix; other site 290318003784 metal binding site 1 [ion binding]; metal-binding site 290318003785 dimer interface [polypeptide binding]; other site 290318003786 structural Zn2+ binding site [ion binding]; other site 290318003787 Rubrerythrin [Energy production and conversion]; Region: COG1592 290318003788 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 290318003789 binuclear metal center [ion binding]; other site 290318003790 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 290318003791 iron binding site [ion binding]; other site 290318003792 DPS-like protein, ferritin-like diiron-binding domain; Region: DPSL; cd01052 290318003793 Ferritin-like domain; Region: Ferritin; pfam00210 290318003794 diiron binding motif [ion binding]; other site 290318003795 peroxiredoxin; Provisional; Region: PRK13189 290318003796 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 290318003797 dimer interface [polypeptide binding]; other site 290318003798 decamer (pentamer of dimers) interface [polypeptide binding]; other site 290318003799 catalytic triad [active] 290318003800 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 290318003801 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 290318003802 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 290318003803 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 290318003804 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290318003805 Walker A/P-loop; other site 290318003806 ATP binding site [chemical binding]; other site 290318003807 Q-loop/lid; other site 290318003808 ABC transporter signature motif; other site 290318003809 Walker B; other site 290318003810 D-loop; other site 290318003811 H-loop/switch region; other site 290318003812 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 290318003813 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 290318003814 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 290318003815 Transcriptional regulator; Region: Transcrip_reg; cl00361 290318003816 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 290318003817 active site 290318003818 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 290318003819 TSCPD domain; Region: TSCPD; pfam12637 290318003820 quinolinate synthetase; Provisional; Region: PRK09375 290318003821 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 290318003822 oligomerisation interface [polypeptide binding]; other site 290318003823 mobile loop; other site 290318003824 roof hairpin; other site 290318003825 rod shape-determining protein MreC; Provisional; Region: PRK13922 290318003826 rod shape-determining protein MreC; Region: MreC; pfam04085 290318003827 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 290318003828 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 290318003829 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 290318003830 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 290318003831 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 290318003832 FAD binding domain; Region: FAD_binding_4; pfam01565 290318003833 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 290318003834 SmpB-tmRNA interface; other site 290318003835 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 290318003836 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 290318003837 active site 290318003838 HIGH motif; other site 290318003839 dimer interface [polypeptide binding]; other site 290318003840 KMSKS motif; other site 290318003841 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 290318003842 RNA binding surface [nucleotide binding]; other site 290318003843 pyruvoyl-dependent arginine decarboxylase; Reviewed; Region: PRK01285 290318003844 L-aspartate oxidase; Provisional; Region: PRK09077 290318003845 L-aspartate oxidase; Provisional; Region: PRK06175 290318003846 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 290318003847 NAD synthetase; Provisional; Region: PRK13980 290318003848 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 290318003849 homodimer interface [polypeptide binding]; other site 290318003850 NAD binding pocket [chemical binding]; other site 290318003851 ATP binding pocket [chemical binding]; other site 290318003852 Mg binding site [ion binding]; other site 290318003853 active-site loop [active] 290318003854 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 290318003855 Peptidase family M23; Region: Peptidase_M23; pfam01551 290318003856 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 290318003857 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 290318003858 hinge; other site 290318003859 active site 290318003860 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 290318003861 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 290318003862 Transposase IS200 like; Region: Y1_Tnp; pfam01797 290318003863 Divergent AAA domain; Region: AAA_4; pfam04326 290318003864 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290318003865 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 290318003866 putative NAD(P) binding site [chemical binding]; other site 290318003867 active site 290318003868 putative substrate binding site [chemical binding]; other site 290318003869 Uncharacterized conserved protein [Function unknown]; Region: COG2308 290318003870 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 290318003871 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 290318003872 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 290318003873 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 290318003874 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 290318003875 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 290318003876 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 290318003877 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 290318003878 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 290318003879 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 290318003880 FeS/SAM binding site; other site 290318003881 shikimate kinase; Reviewed; Region: aroK; PRK00131 290318003882 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 290318003883 ADP binding site [chemical binding]; other site 290318003884 magnesium binding site [ion binding]; other site 290318003885 putative shikimate binding site; other site 290318003886 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 290318003887 active site 290318003888 dimer interface [polypeptide binding]; other site 290318003889 metal binding site [ion binding]; metal-binding site 290318003890 pantothenate kinase; Reviewed; Region: PRK13320 290318003891 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290318003892 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 290318003893 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 290318003894 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 290318003895 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 290318003896 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 290318003897 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 290318003898 dimerization interface [polypeptide binding]; other site 290318003899 putative DNA binding site [nucleotide binding]; other site 290318003900 putative Zn2+ binding site [ion binding]; other site 290318003901 AsnC family; Region: AsnC_trans_reg; pfam01037 290318003902 phytoene desaturase; Region: phytoene_desat; TIGR02731 290318003903 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290318003904 chlorosome envelope protein H repeat; Region: rpt_csmH; TIGR03058 290318003905 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 290318003906 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 290318003907 active site 290318003908 phosphorylation site [posttranslational modification] 290318003909 intermolecular recognition site; other site 290318003910 dimerization interface [polypeptide binding]; other site 290318003911 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 290318003912 Walker A motif; other site 290318003913 ATP binding site [chemical binding]; other site 290318003914 Walker B motif; other site 290318003915 arginine finger; other site 290318003916 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290318003917 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 290318003918 trimer interface [polypeptide binding]; other site 290318003919 active site 290318003920 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 290318003921 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 290318003922 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 290318003923 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; pfam07284 290318003924 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 290318003925 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 290318003926 putative NAD(P) binding site [chemical binding]; other site 290318003927 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 290318003928 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 290318003929 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 290318003930 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 290318003931 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 290318003932 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 290318003933 putative GEF interaction site [polypeptide binding]; other site 290318003934 G1 box; other site 290318003935 GTP/Mg2+ binding site [chemical binding]; other site 290318003936 Switch I region; other site 290318003937 G2 box; other site 290318003938 G3 box; other site 290318003939 Switch II region; other site 290318003940 G4 box; other site 290318003941 G5 box; other site 290318003942 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 290318003943 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 290318003944 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 290318003945 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 290318003946 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 290318003947 tRNA; other site 290318003948 putative tRNA binding site [nucleotide binding]; other site 290318003949 putative NADP binding site [chemical binding]; other site 290318003950 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 290318003951 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 290318003952 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 290318003953 domain interfaces; other site 290318003954 active site 290318003955 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 290318003956 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 290318003957 active site 290318003958 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 290318003959 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 290318003960 active site 290318003961 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 290318003962 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 290318003963 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 290318003964 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK05641 290318003965 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 290318003966 carboxyltransferase (CT) interaction site; other site 290318003967 biotinylation site [posttranslational modification]; other site 290318003968 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 290318003969 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 290318003970 dimer interface [polypeptide binding]; other site 290318003971 active site 290318003972 aspartate-rich active site metal binding site; other site 290318003973 allosteric magnesium binding site [ion binding]; other site 290318003974 Schiff base residues; other site 290318003975 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 290318003976 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 290318003977 Tetramer interface [polypeptide binding]; other site 290318003978 active site 290318003979 FMN-binding site [chemical binding]; other site 290318003980 serine acetyltransferase; Provisional; Region: cysE; PRK11132 290318003981 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 290318003982 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 290318003983 trimer interface [polypeptide binding]; other site 290318003984 active site 290318003985 substrate binding site [chemical binding]; other site 290318003986 CoA binding site [chemical binding]; other site 290318003987 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 290318003988 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 290318003989 active site 290318003990 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 290318003991 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 290318003992 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290318003993 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 290318003994 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12509 290318003995 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12659 290318003996 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 290318003997 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290318003998 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 290318003999 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 290318004000 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 290318004001 Leucine carboxyl methyltransferase; Region: LCM; cl01306 290318004002 Predicted permeases [General function prediction only]; Region: COG0701 290318004003 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 290318004004 dimerization interface [polypeptide binding]; other site 290318004005 putative DNA binding site [nucleotide binding]; other site 290318004006 putative Zn2+ binding site [ion binding]; other site 290318004007 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 290318004008 Carbon starvation protein CstA; Region: CstA; pfam02554 290318004009 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 290318004010 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 290318004011 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 290318004012 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 290318004013 FeS/SAM binding site; other site 290318004014 PUCC protein; Region: PUCC; pfam03209 290318004015 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 290318004016 AAA domain; Region: AAA_30; pfam13604 290318004017 Family description; Region: UvrD_C_2; pfam13538 290318004018 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 290318004019 ThiC-associated domain; Region: ThiC-associated; pfam13667 290318004020 ThiC family; Region: ThiC; pfam01964 290318004021 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 290318004022 Na2 binding site [ion binding]; other site 290318004023 putative substrate binding site 1 [chemical binding]; other site 290318004024 Na binding site 1 [ion binding]; other site 290318004025 putative substrate binding site 2 [chemical binding]; other site 290318004026 triosephosphate isomerase; Provisional; Region: PRK14567 290318004027 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 290318004028 substrate binding site [chemical binding]; other site 290318004029 dimer interface [polypeptide binding]; other site 290318004030 catalytic triad [active] 290318004031 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 290318004032 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 290318004033 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 290318004034 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 290318004035 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 290318004036 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 290318004037 protein binding site [polypeptide binding]; other site 290318004038 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 290318004039 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 290318004040 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 290318004041 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 290318004042 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 290318004043 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 290318004044 Catalytic site [active] 290318004045 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 290318004046 GTP-binding protein LepA; Provisional; Region: PRK05433 290318004047 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 290318004048 G1 box; other site 290318004049 putative GEF interaction site [polypeptide binding]; other site 290318004050 GTP/Mg2+ binding site [chemical binding]; other site 290318004051 Switch I region; other site 290318004052 G2 box; other site 290318004053 G3 box; other site 290318004054 Switch II region; other site 290318004055 G4 box; other site 290318004056 G5 box; other site 290318004057 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 290318004058 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 290318004059 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 290318004060 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 290318004061 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 290318004062 DXD motif; other site 290318004063 HEAT repeats; Region: HEAT_2; pfam13646 290318004064 HEAT repeats; Region: HEAT_2; pfam13646 290318004065 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290318004066 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290318004067 NAD(P) binding site [chemical binding]; other site 290318004068 active site 290318004069 PAS domain S-box; Region: sensory_box; TIGR00229 290318004070 PAS domain; Region: PAS_8; pfam13188 290318004071 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290318004072 Zn2+ binding site [ion binding]; other site 290318004073 Mg2+ binding site [ion binding]; other site 290318004074 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 290318004075 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 290318004076 putative active site [active] 290318004077 substrate binding site [chemical binding]; other site 290318004078 putative cosubstrate binding site; other site 290318004079 catalytic site [active] 290318004080 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 290318004081 substrate binding site [chemical binding]; other site 290318004082 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 290318004083 active site 290318004084 catalytic residues [active] 290318004085 metal binding site [ion binding]; metal-binding site 290318004086 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 290318004087 metal binding site 2 [ion binding]; metal-binding site 290318004088 putative DNA binding helix; other site 290318004089 metal binding site 1 [ion binding]; metal-binding site 290318004090 dimer interface [polypeptide binding]; other site 290318004091 structural Zn2+ binding site [ion binding]; other site 290318004092 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 290318004093 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 290318004094 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 290318004095 Ligand Binding Site [chemical binding]; other site 290318004096 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 290318004097 gamma-glutamyl kinase; Provisional; Region: PRK05429 290318004098 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 290318004099 nucleotide binding site [chemical binding]; other site 290318004100 homotetrameric interface [polypeptide binding]; other site 290318004101 putative phosphate binding site [ion binding]; other site 290318004102 putative allosteric binding site; other site 290318004103 PUA domain; Region: PUA; pfam01472 290318004104 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 290318004105 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 290318004106 PhnA protein; Region: PhnA; pfam03831 290318004107 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 290318004108 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 290318004109 putative catalytic cysteine [active] 290318004110 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 290318004111 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290318004112 Walker A/P-loop; other site 290318004113 ATP binding site [chemical binding]; other site 290318004114 Q-loop/lid; other site 290318004115 ABC transporter signature motif; other site 290318004116 Walker B; other site 290318004117 D-loop; other site 290318004118 H-loop/switch region; other site 290318004119 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 290318004120 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290318004121 putative substrate translocation pore; other site 290318004122 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 290318004123 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 290318004124 inhibitor-cofactor binding pocket; inhibition site 290318004125 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290318004126 catalytic residue [active] 290318004127 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 290318004128 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 290318004129 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 290318004130 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 290318004131 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 290318004132 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 290318004133 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09689 290318004134 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 290318004135 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 290318004136 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 290318004137 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 290318004138 Transposase; Region: HTH_Tnp_1; cl17663 290318004139 putative transposase OrfB; Reviewed; Region: PHA02517 290318004140 HTH-like domain; Region: HTH_21; pfam13276 290318004141 Integrase core domain; Region: rve; pfam00665 290318004142 Integrase core domain; Region: rve_3; pfam13683 290318004143 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 290318004144 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290318004145 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290318004146 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 290318004147 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 290318004148 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 290318004149 Flavodoxin domain; Region: Flavodoxin_5; cl17428 290318004150 chaperone protein DnaJ; Provisional; Region: PRK14281 290318004151 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 290318004152 HSP70 interaction site [polypeptide binding]; other site 290318004153 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 290318004154 substrate binding site [polypeptide binding]; other site 290318004155 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 290318004156 Zn binding sites [ion binding]; other site 290318004157 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 290318004158 dimer interface [polypeptide binding]; other site 290318004159 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 290318004160 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 290318004161 dimer interface [polypeptide binding]; other site 290318004162 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 290318004163 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 290318004164 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 290318004165 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 290318004166 S-adenosylmethionine binding site [chemical binding]; other site 290318004167 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 290318004168 prolyl-tRNA synthetase; Provisional; Region: PRK08661 290318004169 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 290318004170 dimer interface [polypeptide binding]; other site 290318004171 motif 1; other site 290318004172 active site 290318004173 motif 2; other site 290318004174 motif 3; other site 290318004175 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 290318004176 anticodon binding site; other site 290318004177 zinc-binding site [ion binding]; other site 290318004178 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 290318004179 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 290318004180 dimer interface [polypeptide binding]; other site 290318004181 decamer (pentamer of dimers) interface [polypeptide binding]; other site 290318004182 catalytic triad [active] 290318004183 peroxidatic and resolving cysteines [active] 290318004184 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 290318004185 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_8; cd07586 290318004186 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 290318004187 putative active site [active] 290318004188 catalytic triad [active] 290318004189 putative dimer interface [polypeptide binding]; other site 290318004190 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14616 290318004191 Sporulation related domain; Region: SPOR; pfam05036 290318004192 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 290318004193 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 290318004194 Walker A motif; other site 290318004195 ATP binding site [chemical binding]; other site 290318004196 Walker B motif; other site 290318004197 arginine finger; other site 290318004198 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290318004199 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 290318004200 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 290318004201 putative active site [active] 290318004202 catalytic triad [active] 290318004203 putative dimer interface [polypeptide binding]; other site 290318004204 Bacteriochlorophyll A protein; Region: BChl_A; pfam02327 290318004205 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 290318004206 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 290318004207 DNA binding residues [nucleotide binding] 290318004208 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290318004209 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290318004210 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290318004211 Walker A/P-loop; other site 290318004212 ATP binding site [chemical binding]; other site 290318004213 Q-loop/lid; other site 290318004214 ABC transporter signature motif; other site 290318004215 Walker B; other site 290318004216 D-loop; other site 290318004217 H-loop/switch region; other site 290318004218 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 290318004219 MutS domain I; Region: MutS_I; pfam01624 290318004220 MutS domain II; Region: MutS_II; pfam05188 290318004221 MutS domain III; Region: MutS_III; pfam05192 290318004222 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 290318004223 Walker A/P-loop; other site 290318004224 ATP binding site [chemical binding]; other site 290318004225 Q-loop/lid; other site 290318004226 ABC transporter signature motif; other site 290318004227 Walker B; other site 290318004228 D-loop; other site 290318004229 H-loop/switch region; other site 290318004230 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 290318004231 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 290318004232 malate dehydrogenase; Reviewed; Region: PRK06223 290318004233 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 290318004234 NAD(P) binding site [chemical binding]; other site 290318004235 dimer interface [polypeptide binding]; other site 290318004236 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290318004237 substrate binding site [chemical binding]; other site 290318004238 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 290318004239 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 290318004240 Peptidase family M48; Region: Peptidase_M48; pfam01435 290318004241 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 290318004242 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 290318004243 putative active site; other site 290318004244 catalytic triad [active] 290318004245 putative dimer interface [polypeptide binding]; other site 290318004246 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 290318004247 UbiA prenyltransferase family; Region: UbiA; pfam01040 290318004248 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 290318004249 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290318004250 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290318004251 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 290318004252 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 290318004253 substrate binding site [chemical binding]; other site 290318004254 glutamase interaction surface [polypeptide binding]; other site 290318004255 Uncharacterized protein family, UPF0114; Region: UPF0114; pfam03350 290318004256 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 290318004257 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 290318004258 oligomer interface [polypeptide binding]; other site 290318004259 metal binding site [ion binding]; metal-binding site 290318004260 metal binding site [ion binding]; metal-binding site 290318004261 Cl binding site [ion binding]; other site 290318004262 aspartate ring; other site 290318004263 basic sphincter; other site 290318004264 putative hydrophobic gate; other site 290318004265 periplasmic entrance; other site 290318004266 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 290318004267 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 290318004268 active site 290318004269 catalytic residues [active] 290318004270 metal binding site [ion binding]; metal-binding site 290318004271 Nif-specific regulatory protein; Region: nifA; TIGR01817 290318004272 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 290318004273 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 290318004274 Walker A motif; other site 290318004275 ATP binding site [chemical binding]; other site 290318004276 Walker B motif; other site 290318004277 arginine finger; other site 290318004278 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290318004279 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 290318004280 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 290318004281 Nucleotide-binding sites [chemical binding]; other site 290318004282 Walker A motif; other site 290318004283 Switch I region of nucleotide binding site; other site 290318004284 Fe4S4 binding sites [ion binding]; other site 290318004285 Switch II region of nucleotide binding site; other site 290318004286 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 290318004287 Nitrogen regulatory protein P-II; Region: P-II; smart00938 290318004288 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 290318004289 Nitrogen regulatory protein P-II; Region: P-II; smart00938 290318004290 nitrogenase alpha chain; Region: alt_nitrog_alph; TIGR01284 290318004291 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 290318004292 MoFe protein alpha/beta subunit interactions; other site 290318004293 Alpha subunit P cluster binding residues; other site 290318004294 FeMoco binding residues [chemical binding]; other site 290318004295 MoFe protein alpha subunit/Fe protein contacts; other site 290318004296 MoFe protein dimer/ dimer interactions; other site 290318004297 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 290318004298 MoFe protein beta/alpha subunit interactions; other site 290318004299 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 290318004300 Beta subunit P cluster binding residues; other site 290318004301 MoFe protein beta subunit/Fe protein contacts; other site 290318004302 MoFe protein dimer/ dimer interactions; other site 290318004303 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 290318004304 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 290318004305 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 290318004306 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 290318004307 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 290318004308 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 290318004309 FeS/SAM binding site; other site 290318004310 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 290318004311 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 290318004312 dimer interface [polypeptide binding]; other site 290318004313 [2Fe-2S] cluster binding site [ion binding]; other site 290318004314 Cytochrome c; Region: Cytochrom_C; cl11414 290318004315 Cytochrome c; Region: Cytochrom_C; pfam00034 290318004316 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 290318004317 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 290318004318 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 290318004319 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 290318004320 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 290318004321 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 290318004322 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 290318004323 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 290318004324 FeS/SAM binding site; other site 290318004325 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 290318004326 MOSC domain; Region: MOSC; pfam03473 290318004327 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 290318004328 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 290318004329 homodimer interface [polypeptide binding]; other site 290318004330 substrate-cofactor binding pocket; other site 290318004331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290318004332 catalytic residue [active] 290318004333 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 290318004334 thiS-thiF/thiG interaction site; other site 290318004335 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 290318004336 ThiS interaction site; other site 290318004337 putative active site [active] 290318004338 tetramer interface [polypeptide binding]; other site 290318004339 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 290318004340 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 290318004341 FeS/SAM binding site; other site 290318004342 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 290318004343 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 290318004344 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 290318004345 ATP binding site [chemical binding]; other site 290318004346 substrate interface [chemical binding]; other site 290318004347 ResB-like family; Region: ResB; pfam05140 290318004348 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 290318004349 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 290318004350 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290318004351 Coenzyme A binding pocket [chemical binding]; other site 290318004352 putative transporter; Provisional; Region: PRK10484 290318004353 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 290318004354 Na binding site [ion binding]; other site 290318004355 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 290318004356 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 290318004357 FeS/SAM binding site; other site 290318004358 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 290318004359 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290318004360 MarR family; Region: MarR; pfam01047 290318004361 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290318004362 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290318004363 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290318004364 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 290318004365 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 290318004366 FeS/SAM binding site; other site 290318004367 HemN C-terminal domain; Region: HemN_C; pfam06969 290318004368 AIR carboxylase; Region: AIRC; pfam00731 290318004369 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 290318004370 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 290318004371 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290318004372 acetylornithine aminotransferase; Provisional; Region: PRK02627 290318004373 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 290318004374 inhibitor-cofactor binding pocket; inhibition site 290318004375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290318004376 catalytic residue [active] 290318004377 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 290318004378 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 290318004379 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 290318004380 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 290318004381 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 290318004382 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 290318004383 DNA primase; Validated; Region: dnaG; PRK05667 290318004384 CHC2 zinc finger; Region: zf-CHC2; pfam01807 290318004385 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 290318004386 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 290318004387 active site 290318004388 metal binding site [ion binding]; metal-binding site 290318004389 interdomain interaction site; other site 290318004390 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 290318004391 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 290318004392 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 290318004393 dimer interface [polypeptide binding]; other site 290318004394 active site 290318004395 glycine-pyridoxal phosphate binding site [chemical binding]; other site 290318004396 folate binding site [chemical binding]; other site 290318004397 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 290318004398 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 290318004399 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 290318004400 dimerization interface [polypeptide binding]; other site 290318004401 active site 290318004402 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 290318004403 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 290318004404 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 290318004405 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 290318004406 ATP-grasp domain; Region: ATP-grasp_4; cl17255 290318004407 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 290318004408 IMP binding site; other site 290318004409 dimer interface [polypeptide binding]; other site 290318004410 interdomain contacts; other site 290318004411 partial ornithine binding site; other site 290318004412 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 290318004413 dinuclear metal binding motif [ion binding]; other site 290318004414 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290318004415 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 290318004416 putative active site [active] 290318004417 putative metal binding site [ion binding]; other site 290318004418 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 290318004419 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 290318004420 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 290318004421 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 290318004422 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 290318004423 heterodimer interface [polypeptide binding]; other site 290318004424 active site 290318004425 FMN binding site [chemical binding]; other site 290318004426 homodimer interface [polypeptide binding]; other site 290318004427 substrate binding site [chemical binding]; other site 290318004428 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 290318004429 homotrimer interaction site [polypeptide binding]; other site 290318004430 zinc binding site [ion binding]; other site 290318004431 CDP-binding sites; other site 290318004432 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 290318004433 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 290318004434 FtsX-like permease family; Region: FtsX; pfam02687 290318004435 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 290318004436 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 290318004437 active site 290318004438 ADP/pyrophosphate binding site [chemical binding]; other site 290318004439 dimerization interface [polypeptide binding]; other site 290318004440 allosteric effector site; other site 290318004441 fructose-1,6-bisphosphate binding site; other site 290318004442 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 290318004443 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 290318004444 homodimer interface [polypeptide binding]; other site 290318004445 substrate-cofactor binding pocket; other site 290318004446 catalytic residue [active] 290318004447 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 290318004448 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 290318004449 DNA polymerase III subunit delta'; Validated; Region: PRK08485 290318004450 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 290318004451 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 290318004452 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 290318004453 active site 290318004454 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 290318004455 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 290318004456 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 290318004457 bacteriochlorophyll/chlorophyll a synthase; Reviewed; Region: PRK07566 290318004458 UbiA prenyltransferase family; Region: UbiA; pfam01040 290318004459 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 290318004460 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 290318004461 RNA/DNA hybrid binding site [nucleotide binding]; other site 290318004462 active site 290318004463 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 290318004464 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 290318004465 Ligand Binding Site [chemical binding]; other site 290318004466 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 290318004467 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 290318004468 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 290318004469 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 290318004470 Walker A/P-loop; other site 290318004471 ATP binding site [chemical binding]; other site 290318004472 Q-loop/lid; other site 290318004473 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 290318004474 ABC transporter signature motif; other site 290318004475 Walker B; other site 290318004476 D-loop; other site 290318004477 H-loop/switch region; other site 290318004478 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 290318004479 dihydrodipicolinate synthase; Region: dapA; TIGR00674 290318004480 dimer interface [polypeptide binding]; other site 290318004481 active site 290318004482 catalytic residue [active] 290318004483 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 290318004484 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 290318004485 tetramer interface [polypeptide binding]; other site 290318004486 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290318004487 catalytic residue [active] 290318004488 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 290318004489 lipoyl attachment site [posttranslational modification]; other site 290318004490 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 290318004491 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 290318004492 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 290318004493 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 290318004494 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 290318004495 dimer interface [polypeptide binding]; other site 290318004496 PYR/PP interface [polypeptide binding]; other site 290318004497 TPP binding site [chemical binding]; other site 290318004498 substrate binding site [chemical binding]; other site 290318004499 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 290318004500 Domain of unknown function; Region: EKR; pfam10371 290318004501 4Fe-4S binding domain; Region: Fer4_6; pfam12837 290318004502 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 290318004503 TPP-binding site [chemical binding]; other site 290318004504 dimer interface [polypeptide binding]; other site 290318004505 TPR repeat; Region: TPR_11; pfam13414 290318004506 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 290318004507 binding surface 290318004508 TPR motif; other site 290318004509 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 290318004510 binding surface 290318004511 TPR motif; other site 290318004512 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 290318004513 TPR repeat; Region: TPR_11; pfam13414 290318004514 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 290318004515 binding surface 290318004516 TPR motif; other site 290318004517 TPR repeat; Region: TPR_11; pfam13414 290318004518 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 290318004519 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 290318004520 Walker A motif; other site 290318004521 ATP binding site [chemical binding]; other site 290318004522 Walker B motif; other site 290318004523 arginine finger; other site 290318004524 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 290318004525 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 290318004526 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290318004527 dimer interface [polypeptide binding]; other site 290318004528 conserved gate region; other site 290318004529 putative PBP binding loops; other site 290318004530 ABC-ATPase subunit interface; other site 290318004531 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 290318004532 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 290318004533 peptide binding site [polypeptide binding]; other site 290318004534 HPr kinase/phosphorylase; Provisional; Region: PRK05428 290318004535 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 290318004536 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 290318004537 Hpr binding site; other site 290318004538 active site 290318004539 homohexamer subunit interaction site [polypeptide binding]; other site 290318004540 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 290318004541 30S subunit binding site; other site 290318004542 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 290318004543 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 290318004544 active site 290318004545 DNA binding site [nucleotide binding] 290318004546 Int/Topo IB signature motif; other site 290318004547 PQQ-like domain; Region: PQQ_2; pfam13360 290318004548 Putative methyltransferase; Region: Methyltransf_16; pfam10294 290318004549 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 290318004550 Photosystem P840 reaction-centre cytochrome c-551; Region: Cytochrome-c551; pfam10643 290318004551 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 290318004552 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 290318004553 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 290318004554 Walker A motif; other site 290318004555 ATP binding site [chemical binding]; other site 290318004556 Walker B motif; other site 290318004557 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 290318004558 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 290318004559 tandem repeat interface [polypeptide binding]; other site 290318004560 oligomer interface [polypeptide binding]; other site 290318004561 active site residues [active] 290318004562 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 290318004563 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 290318004564 tandem repeat interface [polypeptide binding]; other site 290318004565 oligomer interface [polypeptide binding]; other site 290318004566 active site residues [active] 290318004567 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 290318004568 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290318004569 Walker A/P-loop; other site 290318004570 ATP binding site [chemical binding]; other site 290318004571 Q-loop/lid; other site 290318004572 ABC transporter signature motif; other site 290318004573 Walker B; other site 290318004574 D-loop; other site 290318004575 H-loop/switch region; other site 290318004576 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290318004577 Predicted methyltransferases [General function prediction only]; Region: COG0313 290318004578 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 290318004579 putative SAM binding site [chemical binding]; other site 290318004580 putative homodimer interface [polypeptide binding]; other site 290318004581 Pantoate-beta-alanine ligase; Region: PanC; cd00560 290318004582 pantoate--beta-alanine ligase; Region: panC; TIGR00018 290318004583 active site 290318004584 ATP-binding site [chemical binding]; other site 290318004585 pantoate-binding site; other site 290318004586 HXXH motif; other site 290318004587 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 290318004588 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 290318004589 RNase E interface [polypeptide binding]; other site 290318004590 trimer interface [polypeptide binding]; other site 290318004591 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 290318004592 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 290318004593 RNase E interface [polypeptide binding]; other site 290318004594 trimer interface [polypeptide binding]; other site 290318004595 active site 290318004596 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 290318004597 putative nucleic acid binding region [nucleotide binding]; other site 290318004598 G-X-X-G motif; other site 290318004599 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 290318004600 RNA binding site [nucleotide binding]; other site 290318004601 domain interface; other site 290318004602 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 290318004603 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 290318004604 HIGH motif; other site 290318004605 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 290318004606 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 290318004607 active site 290318004608 KMSKS motif; other site 290318004609 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 290318004610 tRNA binding surface [nucleotide binding]; other site 290318004611 acetyl-CoA synthetase; Provisional; Region: PRK00174 290318004612 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 290318004613 active site 290318004614 CoA binding site [chemical binding]; other site 290318004615 acyl-activating enzyme (AAE) consensus motif; other site 290318004616 AMP binding site [chemical binding]; other site 290318004617 acetate binding site [chemical binding]; other site 290318004618 TspO/MBR family; Region: TspO_MBR; pfam03073 290318004619 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 290318004620 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 290318004621 active site 290318004622 dimerization interface [polypeptide binding]; other site 290318004623 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 290318004624 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 290318004625 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 290318004626 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 290318004627 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 290318004628 active site 290318004629 putative DNA-binding cleft [nucleotide binding]; other site 290318004630 dimer interface [polypeptide binding]; other site 290318004631 hypothetical protein; Validated; Region: PRK00110 290318004632 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 290318004633 Prephenate dehydratase; Region: PDT; pfam00800 290318004634 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 290318004635 putative L-Phe binding site [chemical binding]; other site 290318004636 DNA polymerase I; Provisional; Region: PRK05755 290318004637 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 290318004638 active site 290318004639 metal binding site 1 [ion binding]; metal-binding site 290318004640 putative 5' ssDNA interaction site; other site 290318004641 metal binding site 3; metal-binding site 290318004642 metal binding site 2 [ion binding]; metal-binding site 290318004643 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 290318004644 putative DNA binding site [nucleotide binding]; other site 290318004645 putative metal binding site [ion binding]; other site 290318004646 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 290318004647 active site 290318004648 catalytic site [active] 290318004649 substrate binding site [chemical binding]; other site 290318004650 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 290318004651 active site 290318004652 DNA binding site [nucleotide binding] 290318004653 catalytic site [active] 290318004654 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 290318004655 Peptidase family M23; Region: Peptidase_M23; pfam01551 290318004656 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 290318004657 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 290318004658 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 290318004659 Surface antigen; Region: Bac_surface_Ag; pfam01103 290318004660 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 290318004661 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 290318004662 substrate binding site [chemical binding]; other site 290318004663 hexamer interface [polypeptide binding]; other site 290318004664 metal binding site [ion binding]; metal-binding site 290318004665 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 290318004666 active site 290318004667 ribulose/triose binding site [chemical binding]; other site 290318004668 phosphate binding site [ion binding]; other site 290318004669 substrate (anthranilate) binding pocket [chemical binding]; other site 290318004670 product (indole) binding pocket [chemical binding]; other site 290318004671 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 290318004672 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 290318004673 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 290318004674 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 290318004675 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 290318004676 MPN+ (JAMM) motif; other site 290318004677 Zinc-binding site [ion binding]; other site 290318004678 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 290318004679 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 290318004680 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 290318004681 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 290318004682 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 290318004683 putative acyl-acceptor binding pocket; other site 290318004684 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 290318004685 Isochorismatase family; Region: Isochorismatase; pfam00857 290318004686 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 290318004687 catalytic triad [active] 290318004688 dimer interface [polypeptide binding]; other site 290318004689 conserved cis-peptide bond; other site 290318004690 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 290318004691 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 290318004692 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 290318004693 conserved cys residue [active] 290318004694 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 290318004695 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290318004696 TM-ABC transporter signature motif; other site 290318004697 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 290318004698 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 290318004699 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 290318004700 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 290318004701 Predicted membrane protein [Function unknown]; Region: COG4420 290318004702 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), TaA; Region: NGN_SP_TaA; cd09893 290318004703 transcriptional activator RfaH; Region: RfaH; TIGR01955 290318004704 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 290318004705 Uncharacterized conserved protein [Function unknown]; Region: COG1434 290318004706 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 290318004707 putative active site [active] 290318004708 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 290318004709 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 290318004710 ATP binding site [chemical binding]; other site 290318004711 putative Mg++ binding site [ion binding]; other site 290318004712 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 290318004713 nucleotide binding region [chemical binding]; other site 290318004714 ATP-binding site [chemical binding]; other site 290318004715 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 290318004716 HRDC domain; Region: HRDC; pfam00570 290318004717 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 290318004718 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 290318004719 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 290318004720 FeS/SAM binding site; other site 290318004721 hybrid cluster protein; Provisional; Region: PRK05290 290318004722 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 290318004723 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 290318004724 hybrid metal cluster; other site 290318004725 TPR repeat; Region: TPR_11; pfam13414 290318004726 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 290318004727 binding surface 290318004728 TPR motif; other site 290318004729 Predicted transcriptional regulator [Transcription]; Region: COG1959 290318004730 Transcriptional regulator; Region: Rrf2; pfam02082 290318004731 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 290318004732 Haem-binding domain; Region: Haem_bd; pfam14376 290318004733 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 290318004734 Peptidase family M50; Region: Peptidase_M50; pfam02163 290318004735 active site 290318004736 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 290318004737 putative substrate binding region [chemical binding]; other site 290318004738 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 290318004739 dihydropteroate synthase; Region: DHPS; TIGR01496 290318004740 substrate binding pocket [chemical binding]; other site 290318004741 dimer interface [polypeptide binding]; other site 290318004742 inhibitor binding site; inhibition site 290318004743 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 290318004744 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 290318004745 Walker A/P-loop; other site 290318004746 ATP binding site [chemical binding]; other site 290318004747 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 290318004748 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 290318004749 ABC transporter signature motif; other site 290318004750 Walker B; other site 290318004751 D-loop; other site 290318004752 H-loop/switch region; other site 290318004753 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 290318004754 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 290318004755 transcription antitermination factor NusB; Region: nusB; TIGR01951 290318004756 putative RNA binding site [nucleotide binding]; other site 290318004757 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290318004758 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 290318004759 active site 290318004760 metal binding site [ion binding]; metal-binding site 290318004761 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 290318004762 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 290318004763 helix-hairpin-helix signature motif; other site 290318004764 substrate binding pocket [chemical binding]; other site 290318004765 active site 290318004766 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 290318004767 aminodeoxychorismate synthase; Provisional; Region: PRK07508 290318004768 chorismate binding enzyme; Region: Chorismate_bind; cl10555 290318004769 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 290318004770 homodimer interface [polypeptide binding]; other site 290318004771 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 290318004772 substrate-cofactor binding pocket; other site 290318004773 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290318004774 catalytic residue [active] 290318004775 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 290318004776 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 290318004777 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290318004778 Zn2+ binding site [ion binding]; other site 290318004779 Mg2+ binding site [ion binding]; other site 290318004780 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 290318004781 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 290318004782 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 290318004783 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 290318004784 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 290318004785 RNA binding surface [nucleotide binding]; other site 290318004786 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 290318004787 active site 290318004788 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 290318004789 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 290318004790 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 290318004791 catalytic residues [active] 290318004792 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 290318004793 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 290318004794 putative active site [active] 290318004795 oxyanion strand; other site 290318004796 catalytic triad [active] 290318004797 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 290318004798 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 290318004799 FAD binding pocket [chemical binding]; other site 290318004800 FAD binding motif [chemical binding]; other site 290318004801 phosphate binding motif [ion binding]; other site 290318004802 beta-alpha-beta structure motif; other site 290318004803 NAD binding pocket [chemical binding]; other site 290318004804 Iron coordination center [ion binding]; other site 290318004805 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 290318004806 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 290318004807 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290318004808 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290318004809 Predicted permeases [General function prediction only]; Region: COG0679 290318004810 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290318004811 HlyD family secretion protein; Region: HlyD_3; pfam13437 290318004812 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 290318004813 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 290318004814 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 290318004815 S-adenosylmethionine binding site [chemical binding]; other site 290318004816 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 290318004817 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 290318004818 nucleotide binding pocket [chemical binding]; other site 290318004819 K-X-D-G motif; other site 290318004820 catalytic site [active] 290318004821 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 290318004822 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 290318004823 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 290318004824 Dimer interface [polypeptide binding]; other site 290318004825 BRCT sequence motif; other site 290318004826 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 290318004827 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 290318004828 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290318004829 Walker A/P-loop; other site 290318004830 ATP binding site [chemical binding]; other site 290318004831 Q-loop/lid; other site 290318004832 ABC transporter signature motif; other site 290318004833 Walker B; other site 290318004834 D-loop; other site 290318004835 H-loop/switch region; other site 290318004836 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 290318004837 arsenical-resistance protein; Region: acr3; TIGR00832 290318004838 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 290318004839 Low molecular weight phosphatase family; Region: LMWPc; cd00115 290318004840 active site 290318004841 Predicted permeases [General function prediction only]; Region: COG0701 290318004842 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 290318004843 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 290318004844 dimerization interface [polypeptide binding]; other site 290318004845 putative DNA binding site [nucleotide binding]; other site 290318004846 putative Zn2+ binding site [ion binding]; other site 290318004847 putative molybdenum utilization protein ModD; Region: modD; TIGR01334 290318004848 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 290318004849 dimerization interface [polypeptide binding]; other site 290318004850 active site 290318004851 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 290318004852 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 290318004853 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 290318004854 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290318004855 dimer interface [polypeptide binding]; other site 290318004856 conserved gate region; other site 290318004857 putative PBP binding loops; other site 290318004858 ABC-ATPase subunit interface; other site 290318004859 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290318004860 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 290318004861 Walker A/P-loop; other site 290318004862 ATP binding site [chemical binding]; other site 290318004863 Q-loop/lid; other site 290318004864 ABC transporter signature motif; other site 290318004865 Walker B; other site 290318004866 D-loop; other site 290318004867 H-loop/switch region; other site 290318004868 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 290318004869 pteridine reductase; Provisional; Region: PRK09135 290318004870 classical (c) SDRs; Region: SDR_c; cd05233 290318004871 NAD(P) binding site [chemical binding]; other site 290318004872 active site 290318004873 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 290318004874 active site 290318004875 catalytic site [active] 290318004876 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 290318004877 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 290318004878 intrachain domain interface; other site 290318004879 interchain domain interface [polypeptide binding]; other site 290318004880 heme bH binding site [chemical binding]; other site 290318004881 heme bL binding site [chemical binding]; other site 290318004882 Qo binding site; other site 290318004883 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 290318004884 intrachain domain interface; other site 290318004885 Qi binding site; other site 290318004886 interchain domain interface [polypeptide binding]; other site 290318004887 Qo binding site; other site 290318004888 Cytochrome B6-F complex Fe-S subunit; Region: CytB6-F_Fe-S; pfam08802 290318004889 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 290318004890 iron-sulfur cluster [ion binding]; other site 290318004891 [2Fe-2S] cluster binding site [ion binding]; other site 290318004892 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 290318004893 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 290318004894 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 290318004895 HIGH motif; other site 290318004896 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 290318004897 active site 290318004898 KMSKS motif; other site 290318004899 FtsH Extracellular; Region: FtsH_ext; pfam06480 290318004900 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 290318004901 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 290318004902 Walker B motif; other site 290318004903 arginine finger; other site 290318004904 Peptidase family M41; Region: Peptidase_M41; pfam01434 290318004905 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 290318004906 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 290318004907 IHF dimer interface [polypeptide binding]; other site 290318004908 IHF - DNA interface [nucleotide binding]; other site 290318004909 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 290318004910 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 290318004911 transmembrane helices; other site 290318004912 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290318004913 active site 290318004914 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 290318004915 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 290318004916 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 290318004917 FeS/SAM binding site; other site 290318004918 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 290318004919 GTPase Era; Reviewed; Region: era; PRK00089 290318004920 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 290318004921 G1 box; other site 290318004922 GTP/Mg2+ binding site [chemical binding]; other site 290318004923 Switch I region; other site 290318004924 G2 box; other site 290318004925 Switch II region; other site 290318004926 G3 box; other site 290318004927 G4 box; other site 290318004928 G5 box; other site 290318004929 KH domain; Region: KH_2; pfam07650 290318004930 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 290318004931 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 290318004932 RNA binding site [nucleotide binding]; other site 290318004933 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 290318004934 RNA binding site [nucleotide binding]; other site 290318004935 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 290318004936 RNA binding site [nucleotide binding]; other site 290318004937 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 290318004938 RNA binding site [nucleotide binding]; other site 290318004939 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 290318004940 RNA binding site [nucleotide binding]; other site 290318004941 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; cd00164 290318004942 RNA binding site [nucleotide binding]; other site 290318004943 cytidylate kinase; Provisional; Region: cmk; PRK00023 290318004944 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 290318004945 CMP-binding site; other site 290318004946 The sites determining sugar specificity; other site 290318004947 GTP-binding protein YchF; Reviewed; Region: PRK09601 290318004948 YchF GTPase; Region: YchF; cd01900 290318004949 G1 box; other site 290318004950 GTP/Mg2+ binding site [chemical binding]; other site 290318004951 Switch I region; other site 290318004952 G2 box; other site 290318004953 Switch II region; other site 290318004954 G3 box; other site 290318004955 G4 box; other site 290318004956 G5 box; other site 290318004957 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 290318004958 glutamate racemase; Provisional; Region: PRK00865 290318004959 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 290318004960 LytB protein; Region: LYTB; cl00507 290318004961 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 290318004962 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 290318004963 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 290318004964 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 290318004965 active site 290318004966 substrate binding site [chemical binding]; other site 290318004967 metal binding site [ion binding]; metal-binding site 290318004968 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 290318004969 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290318004970 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 290318004971 DNA binding residues [nucleotide binding] 290318004972 Heavy-metal resistance; Region: Metal_resist; pfam13801 290318004973 dimer interface [polypeptide binding]; other site 290318004974 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 290318004975 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 290318004976 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 290318004977 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 290318004978 putative active site [active] 290318004979 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 290318004980 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 290318004981 CoA binding domain; Region: CoA_binding; smart00881 290318004982 CoA-ligase; Region: Ligase_CoA; pfam00549 290318004983 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 290318004984 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 290318004985 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 290318004986 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 290318004987 catalytic residue [active] 290318004988 putative FPP diphosphate binding site; other site 290318004989 putative FPP binding hydrophobic cleft; other site 290318004990 dimer interface [polypeptide binding]; other site 290318004991 putative IPP diphosphate binding site; other site 290318004992 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 290318004993 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 290318004994 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 290318004995 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 290318004996 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 290318004997 Surface antigen; Region: Bac_surface_Ag; pfam01103 290318004998 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 290318004999 Bifunctional nuclease; Region: DNase-RNase; pfam02577 290318005000 UvrB/uvrC motif; Region: UVR; pfam02151 290318005001 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 290318005002 Ligand Binding Site [chemical binding]; other site 290318005003 Electron transfer flavoprotein domain; Region: ETF; smart00893 290318005004 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 290318005005 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 290318005006 Ligand binding site [chemical binding]; other site 290318005007 Electron transfer flavoprotein domain; Region: ETF; pfam01012 290318005008 transcription termination factor Rho; Provisional; Region: rho; PRK09376 290318005009 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 290318005010 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 290318005011 RNA binding site [nucleotide binding]; other site 290318005012 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 290318005013 multimer interface [polypeptide binding]; other site 290318005014 Walker A motif; other site 290318005015 ATP binding site [chemical binding]; other site 290318005016 Walker B motif; other site 290318005017 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 290318005018 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290318005019 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290318005020 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 290318005021 RuvA N terminal domain; Region: RuvA_N; pfam01330 290318005022 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 290318005023 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 290318005024 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 290318005025 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 290318005026 active site 290318005027 substrate binding site [chemical binding]; other site 290318005028 metal binding site [ion binding]; metal-binding site 290318005029 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290318005030 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290318005031 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 290318005032 Walker A/P-loop; other site 290318005033 ATP binding site [chemical binding]; other site 290318005034 Q-loop/lid; other site 290318005035 ABC transporter signature motif; other site 290318005036 Walker B; other site 290318005037 D-loop; other site 290318005038 H-loop/switch region; other site 290318005039 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 290318005040 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 290318005041 FtsX-like permease family; Region: FtsX; pfam02687 290318005042 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 290318005043 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 290318005044 homotetramer interface [polypeptide binding]; other site 290318005045 FMN binding site [chemical binding]; other site 290318005046 homodimer contacts [polypeptide binding]; other site 290318005047 putative active site [active] 290318005048 putative substrate binding site [chemical binding]; other site 290318005049 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 290318005050 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 290318005051 substrate binding pocket [chemical binding]; other site 290318005052 chain length determination region; other site 290318005053 substrate-Mg2+ binding site; other site 290318005054 catalytic residues [active] 290318005055 aspartate-rich region 1; other site 290318005056 active site lid residues [active] 290318005057 aspartate-rich region 2; other site 290318005058 DNA protecting protein DprA; Region: dprA; TIGR00732 290318005059 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 290318005060 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 290318005061 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 290318005062 periplasmic chaperone; Provisional; Region: PRK10780 290318005063 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 290318005064 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 290318005065 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 290318005066 tetramerization interface [polypeptide binding]; other site 290318005067 active site 290318005068 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 290318005069 Substrate binding site; other site 290318005070 Mg++ binding site; other site 290318005071 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290318005072 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 290318005073 active site 290318005074 metal binding site [ion binding]; metal-binding site 290318005075 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 290318005076 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 290318005077 catalytic site [active] 290318005078 G-X2-G-X-G-K; other site 290318005079 hypothetical protein; Provisional; Region: PRK11820 290318005080 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 290318005081 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 290318005082 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 290318005083 16S/18S rRNA binding site [nucleotide binding]; other site 290318005084 S13e-L30e interaction site [polypeptide binding]; other site 290318005085 25S rRNA binding site [nucleotide binding]; other site 290318005086 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 290318005087 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 290318005088 active site 290318005089 Riboflavin kinase; Region: Flavokinase; pfam01687 290318005090 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 290318005091 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 290318005092 RNA binding site [nucleotide binding]; other site 290318005093 active site 290318005094 Ribosome-binding factor A; Region: RBFA; pfam02033 290318005095 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 290318005096 translation initiation factor IF-2; Region: IF-2; TIGR00487 290318005097 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 290318005098 G1 box; other site 290318005099 putative GEF interaction site [polypeptide binding]; other site 290318005100 GTP/Mg2+ binding site [chemical binding]; other site 290318005101 Switch I region; other site 290318005102 G2 box; other site 290318005103 G3 box; other site 290318005104 Switch II region; other site 290318005105 G4 box; other site 290318005106 G5 box; other site 290318005107 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 290318005108 Translation-initiation factor 2; Region: IF-2; pfam11987 290318005109 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 290318005110 NusA N-terminal domain; Region: NusA_N; pfam08529 290318005111 transcription termination factor NusA; Region: NusA; TIGR01953 290318005112 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 290318005113 RNA binding site [nucleotide binding]; other site 290318005114 NusA-like KH domain; Region: KH_5; pfam13184 290318005115 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 290318005116 G-X-X-G motif; other site 290318005117 hypothetical protein; Provisional; Region: PRK14641 290318005118 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 290318005119 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 290318005120 active site 290318005121 HIGH motif; other site 290318005122 nucleotide binding site [chemical binding]; other site 290318005123 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 290318005124 Family of unknown function (DUF490); Region: DUF490; pfam04357 290318005125 Transposase IS200 like; Region: Y1_Tnp; cl00848 290318005126 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 290318005127 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 290318005128 Flavoprotein; Region: Flavoprotein; pfam02441 290318005129 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 290318005130 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 290318005131 Fe-S cluster binding site [ion binding]; other site 290318005132 active site 290318005133 replicative DNA helicase; Region: DnaB; TIGR00665 290318005134 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 290318005135 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 290318005136 Walker A motif; other site 290318005137 ATP binding site [chemical binding]; other site 290318005138 Walker B motif; other site 290318005139 DNA binding loops [nucleotide binding] 290318005140 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 290318005141 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 290318005142 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 290318005143 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 290318005144 SurA N-terminal domain; Region: SurA_N_3; cl07813 290318005145 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 290318005146 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 290318005147 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 290318005148 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 290318005149 S-adenosylmethionine binding site [chemical binding]; other site 290318005150 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 290318005151 GIY-YIG motif/motif A; other site 290318005152 putative active site [active] 290318005153 putative metal binding site [ion binding]; other site 290318005154 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 290318005155 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 290318005156 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 290318005157 P loop; other site 290318005158 GTP binding site [chemical binding]; other site 290318005159 thiamine monophosphate kinase; Provisional; Region: PRK05731 290318005160 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 290318005161 ATP binding site [chemical binding]; other site 290318005162 dimerization interface [polypeptide binding]; other site 290318005163 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 290318005164 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 290318005165 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290318005166 catalytic residue [active] 290318005167 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 290318005168 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 290318005169 Clp amino terminal domain; Region: Clp_N; pfam02861 290318005170 Clp amino terminal domain; Region: Clp_N; pfam02861 290318005171 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 290318005172 Walker A motif; other site 290318005173 ATP binding site [chemical binding]; other site 290318005174 Walker B motif; other site 290318005175 arginine finger; other site 290318005176 UvrB/uvrC motif; Region: UVR; pfam02151 290318005177 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 290318005178 Walker A motif; other site 290318005179 ATP binding site [chemical binding]; other site 290318005180 Walker B motif; other site 290318005181 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 290318005182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290318005183 NAD(P) binding site [chemical binding]; other site 290318005184 active site 290318005185 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 290318005186 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_11; cd08866 290318005187 putative hydrophobic ligand binding site [chemical binding]; other site 290318005188 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 290318005189 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 290318005190 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 290318005191 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290318005192 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 290318005193 Transglycosylase; Region: Transgly; pfam00912 290318005194 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 290318005195 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 290318005196 GMP synthase; Reviewed; Region: guaA; PRK00074 290318005197 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 290318005198 AMP/PPi binding site [chemical binding]; other site 290318005199 candidate oxyanion hole; other site 290318005200 catalytic triad [active] 290318005201 potential glutamine specificity residues [chemical binding]; other site 290318005202 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 290318005203 ATP Binding subdomain [chemical binding]; other site 290318005204 Ligand Binding sites [chemical binding]; other site 290318005205 Dimerization subdomain; other site 290318005206 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 290318005207 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 290318005208 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 290318005209 phosphoserine phosphatase SerB; Region: serB; TIGR00338 290318005210 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 290318005211 motif II; other site 290318005212 Ferredoxin [Energy production and conversion]; Region: COG1146 290318005213 Ferredoxin [Energy production and conversion]; Region: COG1146 290318005214 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 290318005215 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 290318005216 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290318005217 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290318005218 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290318005219 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 290318005220 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 290318005221 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 290318005222 motif 1; other site 290318005223 active site 290318005224 motif 2; other site 290318005225 motif 3; other site 290318005226 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 290318005227 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 290318005228 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 290318005229 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 290318005230 PYR/PP interface [polypeptide binding]; other site 290318005231 TPP binding site [chemical binding]; other site 290318005232 dimer interface [polypeptide binding]; other site 290318005233 substrate binding site [chemical binding]; other site 290318005234 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 290318005235 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 290318005236 TPP-binding site [chemical binding]; other site 290318005237 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 290318005238 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 290318005239 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 290318005240 IHF - DNA interface [nucleotide binding]; other site 290318005241 IHF dimer interface [polypeptide binding]; other site 290318005242 elongation factor P; Validated; Region: PRK00529 290318005243 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 290318005244 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 290318005245 RNA binding site [nucleotide binding]; other site 290318005246 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 290318005247 RNA binding site [nucleotide binding]; other site 290318005248 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 290318005249 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 290318005250 carboxyltransferase (CT) interaction site; other site 290318005251 biotinylation site [posttranslational modification]; other site 290318005252 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 290318005253 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 290318005254 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 290318005255 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 290318005256 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 290318005257 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 290318005258 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 290318005259 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 290318005260 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 290318005261 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 290318005262 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 290318005263 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 290318005264 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 290318005265 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 290318005266 DNA binding site [nucleotide binding] 290318005267 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 290318005268 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 290318005269 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 290318005270 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 290318005271 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 290318005272 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 290318005273 RPB3 interaction site [polypeptide binding]; other site 290318005274 RPB1 interaction site [polypeptide binding]; other site 290318005275 RPB11 interaction site [polypeptide binding]; other site 290318005276 RPB10 interaction site [polypeptide binding]; other site 290318005277 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 290318005278 core dimer interface [polypeptide binding]; other site 290318005279 peripheral dimer interface [polypeptide binding]; other site 290318005280 L10 interface [polypeptide binding]; other site 290318005281 L11 interface [polypeptide binding]; other site 290318005282 putative EF-Tu interaction site [polypeptide binding]; other site 290318005283 putative EF-G interaction site [polypeptide binding]; other site 290318005284 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 290318005285 23S rRNA interface [nucleotide binding]; other site 290318005286 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 290318005287 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 290318005288 mRNA/rRNA interface [nucleotide binding]; other site 290318005289 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 290318005290 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 290318005291 23S rRNA interface [nucleotide binding]; other site 290318005292 L7/L12 interface [polypeptide binding]; other site 290318005293 putative thiostrepton binding site; other site 290318005294 L25 interface [polypeptide binding]; other site 290318005295 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 290318005296 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 290318005297 putative homodimer interface [polypeptide binding]; other site 290318005298 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 290318005299 heterodimer interface [polypeptide binding]; other site 290318005300 homodimer interface [polypeptide binding]; other site 290318005301 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 290318005302 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 290318005303 classical (c) SDRs; Region: SDR_c; cd05233 290318005304 NAD(P) binding site [chemical binding]; other site 290318005305 active site 290318005306 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 290318005307 GcpE protein; Region: GcpE; pfam04551 290318005308 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 290318005309 enolase; Provisional; Region: eno; PRK00077 290318005310 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 290318005311 dimer interface [polypeptide binding]; other site 290318005312 metal binding site [ion binding]; metal-binding site 290318005313 substrate binding pocket [chemical binding]; other site 290318005314 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 290318005315 elongation factor G; Reviewed; Region: PRK12740 290318005316 G1 box; other site 290318005317 putative GEF interaction site [polypeptide binding]; other site 290318005318 GTP/Mg2+ binding site [chemical binding]; other site 290318005319 Switch I region; other site 290318005320 G2 box; other site 290318005321 G3 box; other site 290318005322 Switch II region; other site 290318005323 G4 box; other site 290318005324 G5 box; other site 290318005325 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 290318005326 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 290318005327 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 290318005328 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 290318005329 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 290318005330 Ligand binding site; other site 290318005331 Putative Catalytic site; other site 290318005332 DXD motif; other site 290318005333 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 290318005334 Photosystem I psaA/psaB protein; Region: PsaA_PsaB; cl08224 290318005335 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 290318005336 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 290318005337 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 290318005338 Rubredoxin [Energy production and conversion]; Region: COG1773 290318005339 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 290318005340 iron binding site [ion binding]; other site 290318005341 Transglycosylase; Region: Transgly; cl17702 290318005342 Cytochrome c; Region: Cytochrom_C; pfam00034 290318005343 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 290318005344 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 290318005345 ATP binding site [chemical binding]; other site 290318005346 Mg2+ binding site [ion binding]; other site 290318005347 G-X-G motif; other site 290318005348 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 290318005349 ATP binding site [chemical binding]; other site 290318005350 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 290318005351 competence damage-inducible protein A; Provisional; Region: PRK00549 290318005352 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 290318005353 putative MPT binding site; other site 290318005354 Competence-damaged protein; Region: CinA; pfam02464 290318005355 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 290318005356 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 290318005357 putative catalytic residues [active] 290318005358 putative nucleotide binding site [chemical binding]; other site 290318005359 putative aspartate binding site [chemical binding]; other site 290318005360 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 290318005361 dimer interface [polypeptide binding]; other site 290318005362 putative threonine allosteric regulatory site; other site 290318005363 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 290318005364 putative threonine allosteric regulatory site; other site 290318005365 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 290318005366 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 290318005367 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 290318005368 core domain interface [polypeptide binding]; other site 290318005369 delta subunit interface [polypeptide binding]; other site 290318005370 epsilon subunit interface [polypeptide binding]; other site 290318005371 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 290318005372 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 290318005373 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 290318005374 beta subunit interaction interface [polypeptide binding]; other site 290318005375 Walker A motif; other site 290318005376 ATP binding site [chemical binding]; other site 290318005377 Walker B motif; other site 290318005378 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 290318005379 homoserine kinase; Provisional; Region: PRK01212 290318005380 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 290318005381 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 290318005382 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 290318005383 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290318005384 catalytic residue [active] 290318005385 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 290318005386 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 290318005387 putative acyl-acceptor binding pocket; other site 290318005388 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 290318005389 homopentamer interface [polypeptide binding]; other site 290318005390 active site 290318005391 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 290318005392 dimer interface [polypeptide binding]; other site 290318005393 active site 290318005394 Ion transport protein; Region: Ion_trans; pfam00520 290318005395 Ion channel; Region: Ion_trans_2; pfam07885 290318005396 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 290318005397 Double zinc ribbon; Region: DZR; pfam12773 290318005398 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 290318005399 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 290318005400 substrate binding site [chemical binding]; other site 290318005401 active site 290318005402 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 290318005403 Cysteine-rich domain; Region: CCG; pfam02754 290318005404 Cysteine-rich domain; Region: CCG; pfam02754 290318005405 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 290318005406 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 290318005407 catalytic loop [active] 290318005408 iron binding site [ion binding]; other site 290318005409 L-aspartate oxidase; Provisional; Region: PRK06175 290318005410 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 290318005411 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 290318005412 FOG: CBS domain [General function prediction only]; Region: COG0517 290318005413 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_17; cd04630 290318005414 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 290318005415 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 290318005416 Protein export membrane protein; Region: SecD_SecF; cl14618 290318005417 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290318005418 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 290318005419 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 290318005420 putative homodimer interface [polypeptide binding]; other site 290318005421 putative homotetramer interface [polypeptide binding]; other site 290318005422 putative allosteric switch controlling residues; other site 290318005423 putative metal binding site [ion binding]; other site 290318005424 putative homodimer-homodimer interface [polypeptide binding]; other site 290318005425 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 290318005426 Phosphotransferase enzyme family; Region: APH; pfam01636 290318005427 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 290318005428 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 290318005429 Substrate binding site; other site 290318005430 metal-binding site 290318005431 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 290318005432 putative trimer interface [polypeptide binding]; other site 290318005433 putative CoA binding site [chemical binding]; other site 290318005434 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 290318005435 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u1; cd11493 290318005436 Na binding site [ion binding]; other site 290318005437 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 290318005438 GAF domain; Region: GAF; pfam01590 290318005439 GAF domain; Region: GAF_2; pfam13185 290318005440 GAF domain; Region: GAF_3; pfam13492 290318005441 PAS domain; Region: PAS_9; pfam13426 290318005442 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 290318005443 putative active site [active] 290318005444 heme pocket [chemical binding]; other site 290318005445 PAS domain; Region: PAS; smart00091 290318005446 PAS domain S-box; Region: sensory_box; TIGR00229 290318005447 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 290318005448 putative active site [active] 290318005449 heme pocket [chemical binding]; other site 290318005450 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 290318005451 dimer interface [polypeptide binding]; other site 290318005452 phosphorylation site [posttranslational modification] 290318005453 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 290318005454 ATP binding site [chemical binding]; other site 290318005455 Mg2+ binding site [ion binding]; other site 290318005456 G-X-G motif; other site 290318005457 Response regulator receiver domain; Region: Response_reg; pfam00072 290318005458 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 290318005459 active site 290318005460 phosphorylation site [posttranslational modification] 290318005461 intermolecular recognition site; other site 290318005462 dimerization interface [polypeptide binding]; other site 290318005463 Response regulator receiver domain; Region: Response_reg; pfam00072 290318005464 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 290318005465 active site 290318005466 phosphorylation site [posttranslational modification] 290318005467 intermolecular recognition site; other site 290318005468 dimerization interface [polypeptide binding]; other site 290318005469 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 290318005470 NADH(P)-binding; Region: NAD_binding_10; pfam13460 290318005471 NAD(P) binding site [chemical binding]; other site 290318005472 putative active site [active] 290318005473 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290318005474 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 290318005475 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290318005476 secreted effector protein PipB2; Provisional; Region: PRK15196 290318005477 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290318005478 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290318005479 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 290318005480 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290318005481 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 290318005482 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290318005483 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 290318005484 putative active site [active] 290318005485 heme pocket [chemical binding]; other site 290318005486 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 290318005487 potassium uptake protein; Region: kup; TIGR00794 290318005488 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 290318005489 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 290318005490 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 290318005491 AAA domain; Region: AAA_14; pfam13173 290318005492 AAA domain; Region: AAA_22; pfam13401 290318005493 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 290318005494 Ferrochelatase; Region: Ferrochelatase; pfam00762 290318005495 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 290318005496 C-terminal domain interface [polypeptide binding]; other site 290318005497 active site 290318005498 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 290318005499 active site 290318005500 N-terminal domain interface [polypeptide binding]; other site 290318005501 6-phosphofructokinase; Provisional; Region: PRK03202 290318005502 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 290318005503 active site 290318005504 ADP/pyrophosphate binding site [chemical binding]; other site 290318005505 dimerization interface [polypeptide binding]; other site 290318005506 allosteric effector site; other site 290318005507 fructose-1,6-bisphosphate binding site; other site 290318005508 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 290318005509 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_1; cd03400 290318005510 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 290318005511 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 290318005512 trmE is a tRNA modification GTPase; Region: trmE; cd04164 290318005513 G1 box; other site 290318005514 GTP/Mg2+ binding site [chemical binding]; other site 290318005515 Switch I region; other site 290318005516 G2 box; other site 290318005517 Switch II region; other site 290318005518 G3 box; other site 290318005519 G4 box; other site 290318005520 G5 box; other site 290318005521 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 290318005522 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 290318005523 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 290318005524 homodimer interface [polypeptide binding]; other site 290318005525 metal binding site [ion binding]; metal-binding site 290318005526 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 290318005527 homodimer interface [polypeptide binding]; other site 290318005528 active site 290318005529 putative chemical substrate binding site [chemical binding]; other site 290318005530 Predicted esterase [General function prediction only]; Region: COG0400 290318005531 putative hydrolase; Provisional; Region: PRK11460 290318005532 trehalose synthase; Region: treS_nterm; TIGR02456 290318005533 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 290318005534 active site 290318005535 catalytic site [active] 290318005536 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 290318005537 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 290318005538 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 290318005539 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 290318005540 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 290318005541 active site 290318005542 homodimer interface [polypeptide binding]; other site 290318005543 catalytic site [active] 290318005544 acceptor binding site [chemical binding]; other site 290318005545 PCRF domain; Region: PCRF; pfam03462 290318005546 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 290318005547 RF-1 domain; Region: RF-1; pfam00472 290318005548 Homo sapiens Nbla03831 and related proteins, metallophosphatase domain; Region: MPP_Nbla03831; cd07396 290318005549 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290318005550 active site 290318005551 metal binding site [ion binding]; metal-binding site 290318005552 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 290318005553 Peptidase family M23; Region: Peptidase_M23; pfam01551 290318005554 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 290318005555 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 290318005556 Recombination protein O N terminal; Region: RecO_N; pfam11967 290318005557 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 290318005558 Recombination protein O C terminal; Region: RecO_C; pfam02565 290318005559 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 290318005560 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 290318005561 inhibitor-cofactor binding pocket; inhibition site 290318005562 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290318005563 catalytic residue [active] 290318005564 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 290318005565 camphor resistance protein CrcB; Provisional; Region: PRK14202 290318005566 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 290318005567 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 290318005568 molybdopterin cofactor binding site; other site 290318005569 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 290318005570 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 290318005571 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 290318005572 putative molybdopterin cofactor binding site; other site 290318005573 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 290318005574 4Fe-4S binding domain; Region: Fer4; cl02805 290318005575 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 290318005576 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 290318005577 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 290318005578 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 290318005579 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 290318005580 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290318005581 active site 290318005582 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 290318005583 prephenate dehydrogenase; Validated; Region: PRK08507 290318005584 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 290318005585 ATP-NAD kinase; Region: NAD_kinase; pfam01513 290318005586 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 290318005587 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 290318005588 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 290318005589 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 290318005590 Walker A motif; other site 290318005591 ATP binding site [chemical binding]; other site 290318005592 Walker B motif; other site 290318005593 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 290318005594 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 290318005595 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 290318005596 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 290318005597 catalytic core [active] 290318005598 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 290318005599 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 290318005600 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 290318005601 membrane protein; Provisional; Region: PRK14410 290318005602 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 290318005603 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 290318005604 dimerization interface [polypeptide binding]; other site 290318005605 putative ATP binding site [chemical binding]; other site 290318005606 aspartate kinase III; Validated; Region: PRK09084 290318005607 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 290318005608 nucleotide binding site [chemical binding]; other site 290318005609 substrate binding site [chemical binding]; other site 290318005610 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 290318005611 dimer interface [polypeptide binding]; other site 290318005612 allosteric regulatory binding pocket; other site 290318005613 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 290318005614 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 290318005615 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 290318005616 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 290318005617 exopolyphosphatase; Region: exo_poly_only; TIGR03706 290318005618 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 290318005619 Methyltransferase domain; Region: Methyltransf_26; pfam13659 290318005620 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 290318005621 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 290318005622 inhibitor-cofactor binding pocket; inhibition site 290318005623 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290318005624 catalytic residue [active] 290318005625 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 290318005626 AAA domain; Region: AAA_26; pfam13500 290318005627 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 290318005628 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 290318005629 S-adenosylmethionine binding site [chemical binding]; other site 290318005630 Protein of unknown function (DUF452); Region: DUF452; cl01062 290318005631 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 290318005632 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 290318005633 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290318005634 catalytic residue [active] 290318005635 biotin synthase; Region: bioB; TIGR00433 290318005636 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 290318005637 FeS/SAM binding site; other site 290318005638 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 290318005639 Biotin operon repressor [Transcription]; Region: BirA; COG1654 290318005640 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 290318005641 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 290318005642 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 290318005643 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 290318005644 active site 290318005645 metal binding site [ion binding]; metal-binding site 290318005646 DNA topoisomerase I; Validated; Region: PRK06599 290318005647 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 290318005648 active site 290318005649 interdomain interaction site; other site 290318005650 putative metal-binding site [ion binding]; other site 290318005651 nucleotide binding site [chemical binding]; other site 290318005652 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 290318005653 domain I; other site 290318005654 DNA binding groove [nucleotide binding] 290318005655 phosphate binding site [ion binding]; other site 290318005656 domain II; other site 290318005657 domain III; other site 290318005658 nucleotide binding site [chemical binding]; other site 290318005659 catalytic site [active] 290318005660 domain IV; other site 290318005661 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 290318005662 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 290318005663 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 290318005664 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 290318005665 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 290318005666 G1 box; other site 290318005667 GTP/Mg2+ binding site [chemical binding]; other site 290318005668 Switch I region; other site 290318005669 G2 box; other site 290318005670 G3 box; other site 290318005671 Switch II region; other site 290318005672 G4 box; other site 290318005673 G5 box; other site 290318005674 Nucleoside recognition; Region: Gate; pfam07670 290318005675 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 290318005676 Nucleoside recognition; Region: Gate; pfam07670 290318005677 FeoA domain; Region: FeoA; pfam04023 290318005678 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 290318005679 nucleotide binding site/active site [active] 290318005680 HIT family signature motif; other site 290318005681 catalytic residue [active] 290318005682 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 290318005683 Domain of unknown function DUF21; Region: DUF21; pfam01595 290318005684 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 290318005685 Transporter associated domain; Region: CorC_HlyC; smart01091 290318005686 Cupin; Region: Cupin_1; pfam00190 290318005687 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; pfam09603 290318005688 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 290318005689 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 290318005690 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 290318005691 L-aspartate oxidase; Provisional; Region: PRK06175 290318005692 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 290318005693 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 290318005694 proximal heme binding site [chemical binding]; other site 290318005695 putative dimer interface [polypeptide binding]; other site 290318005696 putative Iron-sulfur protein interface [polypeptide binding]; other site 290318005697 distal heme binding site [chemical binding]; other site 290318005698 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 290318005699 Dihydroorotate dehydrogenase (DHOD) like proteins. 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...; Region: DHOD_like; cd04739 290318005700 putative active site [active] 290318005701 putative FMN binding site [chemical binding]; other site 290318005702 putative substrate binding site [chemical binding]; other site 290318005703 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 290318005704 active site 290318005705 dimer interface [polypeptide binding]; other site 290318005706 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 290318005707 Esterase/lipase [General function prediction only]; Region: COG1647 290318005708 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 290318005709 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 290318005710 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 290318005711 active site 290318005712 intersubunit interactions; other site 290318005713 catalytic residue [active] 290318005714 deoxyhypusine synthase-like protein; Provisional; Region: PRK02492 290318005715 deoxyhypusine synthase; Region: dhys; TIGR00321 290318005716 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 290318005717 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 290318005718 active site 290318005719 HIGH motif; other site 290318005720 dimer interface [polypeptide binding]; other site 290318005721 KMSKS motif; other site 290318005722 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 290318005723 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 290318005724 motif II; other site 290318005725 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 290318005726 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 290318005727 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 290318005728 active site 290318005729 HIGH motif; other site 290318005730 KMSK motif region; other site 290318005731 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 290318005732 tRNA binding surface [nucleotide binding]; other site 290318005733 anticodon binding site; other site 290318005734 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 290318005735 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 290318005736 active site 290318005737 (T/H)XGH motif; other site 290318005738 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 290318005739 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 290318005740 Predicted transcriptional regulator [Transcription]; Region: COG5340 290318005741 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 290318005742 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 290318005743 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 290318005744 F0F1 ATP synthase subunit B; Provisional; Region: PRK14472 290318005745 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 290318005746 ATP synthase subunit C; Region: ATP-synt_C; cl00466 290318005747 F0F1 ATP synthase subunit A; Provisional; Region: PRK13419 290318005748 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 290318005749 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 290318005750 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 290318005751 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 290318005752 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 290318005753 O-methyltransferase; Region: Methyltransf_2; pfam00891 290318005754 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 290318005755 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 290318005756 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 290318005757 cell division protein FtsZ; Validated; Region: PRK09330 290318005758 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 290318005759 nucleotide binding site [chemical binding]; other site 290318005760 SulA interaction site; other site 290318005761 cell division protein FtsA; Region: ftsA; TIGR01174 290318005762 Cell division protein FtsA; Region: FtsA; smart00842 290318005763 Cell division protein FtsA; Region: FtsA; pfam14450 290318005764 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 290318005765 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 290318005766 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 290318005767 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290318005768 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290318005769 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 290318005770 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 290318005771 active site 290318005772 homodimer interface [polypeptide binding]; other site 290318005773 cell division protein FtsW; Region: ftsW; TIGR02614 290318005774 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 290318005775 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290318005776 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290318005777 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 290318005778 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 290318005779 Mg++ binding site [ion binding]; other site 290318005780 putative catalytic motif [active] 290318005781 putative substrate binding site [chemical binding]; other site 290318005782 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 290318005783 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 290318005784 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290318005785 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290318005786 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 290318005787 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 290318005788 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290318005789 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290318005790 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 290318005791 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 290318005792 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 290318005793 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 290318005794 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 290318005795 MraW methylase family; Region: Methyltransf_5; cl17771 290318005796 cell division protein MraZ; Reviewed; Region: PRK00326 290318005797 MraZ protein; Region: MraZ; pfam02381 290318005798 MraZ protein; Region: MraZ; pfam02381 290318005799 YacP-like NYN domain; Region: NYN_YacP; pfam05991 290318005800 Chorismate mutase type II; Region: CM_2; pfam01817 290318005801 YceG-like family; Region: YceG; pfam02618 290318005802 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 290318005803 dimerization interface [polypeptide binding]; other site 290318005804 Phosphoglycerate kinase; Region: PGK; pfam00162 290318005805 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 290318005806 substrate binding site [chemical binding]; other site 290318005807 hinge regions; other site 290318005808 ADP binding site [chemical binding]; other site 290318005809 catalytic site [active] 290318005810 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 290318005811 Uncharacterized conserved protein [Function unknown]; Region: COG3339 290318005812 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 290318005813 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 290318005814 S-adenosylmethionine binding site [chemical binding]; other site 290318005815 PAP2_like_4 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_4; cd03395 290318005816 active site 290318005817 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 290318005818 membrane protein insertase; Provisional; Region: PRK01318 290318005819 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 290318005820 Haemolytic domain; Region: Haemolytic; pfam01809 290318005821 ribonuclease P; Reviewed; Region: rnpA; PRK01903 290318005822 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399