-- dump date 20140619_162924 -- class Genbank::misc_feature -- table misc_feature_note -- id note 598659000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 598659000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 598659000003 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 598659000004 Walker A motif; other site 598659000005 ATP binding site [chemical binding]; other site 598659000006 Walker B motif; other site 598659000007 arginine finger; other site 598659000008 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 598659000009 DnaA box-binding interface [nucleotide binding]; other site 598659000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 598659000011 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 598659000012 putative DNA binding surface [nucleotide binding]; other site 598659000013 dimer interface [polypeptide binding]; other site 598659000014 beta-clamp/clamp loader binding surface; other site 598659000015 beta-clamp/translesion DNA polymerase binding surface; other site 598659000016 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 598659000017 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 598659000018 Mg2+ binding site [ion binding]; other site 598659000019 G-X-G motif; other site 598659000020 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 598659000021 anchoring element; other site 598659000022 dimer interface [polypeptide binding]; other site 598659000023 ATP binding site [chemical binding]; other site 598659000024 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 598659000025 active site 598659000026 putative metal-binding site [ion binding]; other site 598659000027 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 598659000028 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 598659000029 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 598659000030 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 598659000031 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 598659000032 type II secretion system protein E; Region: type_II_gspE; TIGR02533 598659000033 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 598659000034 Walker A motif; other site 598659000035 ATP binding site [chemical binding]; other site 598659000036 Walker B motif; other site 598659000037 type II secretion system protein D; Region: type_II_gspD; TIGR02517 598659000038 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 598659000039 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 598659000040 Type II secretory pathway, component PulC [Intracellular trafficking and secretion]; Region: PulC; COG3031 598659000041 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 598659000042 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 598659000043 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 598659000044 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 598659000045 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 598659000046 Thymidylate synthase complementing protein; Region: Thy1; cl03630 598659000047 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 598659000048 putative binding surface; other site 598659000049 active site 598659000050 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 598659000051 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 598659000052 S-adenosylmethionine binding site [chemical binding]; other site 598659000053 LPP20 lipoprotein; Region: LPP20; pfam02169 598659000054 ATP synthase subunit D; Region: ATP-synt_D; pfam01813 598659000055 V-type ATP synthase subunit B; Provisional; Region: PRK04196 598659000056 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 598659000057 Walker A motif homologous position; other site 598659000058 Walker B motif; other site 598659000059 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 598659000060 V-type ATP synthase subunit A; Provisional; Region: PRK04192 598659000061 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 598659000062 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 598659000063 Walker A motif/ATP binding site; other site 598659000064 Walker B motif; other site 598659000065 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 598659000066 Archaeal/vacuolar-type H+-ATPase subunit F [Energy production and conversion]; Region: NtpG; COG1436 598659000067 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 598659000068 V-type ATP synthase subunit I; Validated; Region: PRK05771 598659000069 Protein of unknown function (DUF2583); Region: DUF2583; cl11676 598659000070 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 598659000071 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 598659000072 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 598659000073 CoA-binding site [chemical binding]; other site 598659000074 ATP-binding [chemical binding]; other site 598659000075 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 598659000076 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 598659000077 Ligand Binding Site [chemical binding]; other site 598659000078 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 598659000079 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 598659000080 acyl-[acyl-carrier-protein]--UDP-N- acetylglucosamine O-acyltransferase; Region: lipid_A_lpxA; TIGR01852 598659000081 putative trimer interface [polypeptide binding]; other site 598659000082 putative CoA binding site [chemical binding]; other site 598659000083 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 598659000084 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 598659000085 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 598659000086 Walker A motif; other site 598659000087 ATP binding site [chemical binding]; other site 598659000088 Walker B motif; other site 598659000089 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 598659000090 rod shape-determining protein MreB; Provisional; Region: PRK13927 598659000091 MreB and similar proteins; Region: MreB_like; cd10225 598659000092 nucleotide binding site [chemical binding]; other site 598659000093 Mg binding site [ion binding]; other site 598659000094 putative protofilament interaction site [polypeptide binding]; other site 598659000095 RodZ interaction site [polypeptide binding]; other site 598659000096 rod shape-determining protein MreC; Provisional; Region: PRK13922 598659000097 rod shape-determining protein MreC; Region: MreC; pfam04085 598659000098 V-type ATP synthase subunit I; Validated; Region: PRK05771 598659000099 Protein of unknown function (DUF328); Region: DUF328; pfam03883 598659000100 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 598659000101 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 598659000102 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 598659000103 protein binding site [polypeptide binding]; other site 598659000104 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 598659000105 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 598659000106 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 598659000107 Lumazine binding domain; Region: Lum_binding; pfam00677 598659000108 Lumazine binding domain; Region: Lum_binding; pfam00677 598659000109 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 598659000110 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 598659000111 FMN binding site [chemical binding]; other site 598659000112 active site 598659000113 catalytic residues [active] 598659000114 substrate binding site [chemical binding]; other site 598659000115 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 598659000116 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 598659000117 active site 598659000118 thiamine phosphate binding site [chemical binding]; other site 598659000119 pyrophosphate binding site [ion binding]; other site 598659000120 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 598659000121 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 598659000122 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 598659000123 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 598659000124 active site 598659000125 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 598659000126 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 598659000127 active site 598659000128 dimer interface [polypeptide binding]; other site 598659000129 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 598659000130 trimer interface [polypeptide binding]; other site 598659000131 active site 598659000132 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 598659000133 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 598659000134 carboxyltransferase (CT) interaction site; other site 598659000135 biotinylation site [posttranslational modification]; other site 598659000136 biotin carboxylase; Validated; Region: PRK08462 598659000137 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 598659000138 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 598659000139 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 598659000140 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 598659000141 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 598659000142 putative ligand binding site [chemical binding]; other site 598659000143 putative NAD binding site [chemical binding]; other site 598659000144 catalytic site [active] 598659000145 Conserved TM helix; Region: TM_helix; pfam05552 598659000146 Mechanosensitive ion channel; Region: MS_channel; pfam00924 598659000147 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 598659000148 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 598659000149 RNA/DNA hybrid binding site [nucleotide binding]; other site 598659000150 active site 598659000151 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 598659000152 AAA domain; Region: AAA_14; pfam13173 598659000153 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 598659000154 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 598659000155 nucleotide binding site/active site [active] 598659000156 HIT family signature motif; other site 598659000157 catalytic residue [active] 598659000158 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 598659000159 active site 598659000160 ribosome recycling factor; Reviewed; Region: frr; PRK00083 598659000161 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 598659000162 hinge region; other site 598659000163 Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u4_5s; cd10973 598659000164 putative active site [active] 598659000165 putative metal binding site [ion binding]; other site 598659000166 Preprotein translocase SecG subunit; Region: SecG; cl09123 598659000167 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 598659000168 Methyltransferase domain; Region: Methyltransf_11; pfam08241 598659000169 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 598659000170 thiamine-phosphate pyrophosphorylase; Provisional; Region: PRK02615 598659000171 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 598659000172 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 598659000173 TPR repeat; Region: TPR_11; pfam13414 598659000174 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 598659000175 binding surface 598659000176 TPR motif; other site 598659000177 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 598659000178 TPR motif; other site 598659000179 binding surface 598659000180 seryl-tRNA synthetase; Provisional; Region: PRK05431 598659000181 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 598659000182 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 598659000183 dimer interface [polypeptide binding]; other site 598659000184 active site 598659000185 motif 1; other site 598659000186 motif 2; other site 598659000187 motif 3; other site 598659000188 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 598659000189 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 598659000190 putative ligand binding site [chemical binding]; other site 598659000191 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 598659000192 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 598659000193 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659000194 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659000195 metal binding site [ion binding]; metal-binding site 598659000196 active site 598659000197 I-site; other site 598659000198 PAS domain; Region: PAS_9; pfam13426 598659000199 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 598659000200 putative active site [active] 598659000201 heme pocket [chemical binding]; other site 598659000202 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 598659000203 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 598659000204 TM-ABC transporter signature motif; other site 598659000205 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 598659000206 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 598659000207 TM-ABC transporter signature motif; other site 598659000208 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 598659000209 ThiS interaction site; other site 598659000210 putative active site [active] 598659000211 tetramer interface [polypeptide binding]; other site 598659000212 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 598659000213 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659000214 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659000215 metal binding site [ion binding]; metal-binding site 598659000216 active site 598659000217 I-site; other site 598659000218 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 598659000219 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 598659000220 active site 598659000221 substrate-binding site [chemical binding]; other site 598659000222 metal-binding site [ion binding] 598659000223 ATP binding site [chemical binding]; other site 598659000224 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 598659000225 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 598659000226 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 598659000227 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 598659000228 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 598659000229 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 598659000230 non-heme iron binding site [ion binding]; other site 598659000231 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 598659000232 active site 598659000233 RNA/DNA hybrid binding site [nucleotide binding]; other site 598659000234 HDOD domain; Region: HDOD; pfam08668 598659000235 ribonuclease III; Reviewed; Region: rnc; PRK00102 598659000236 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 598659000237 dimerization interface [polypeptide binding]; other site 598659000238 active site 598659000239 metal binding site [ion binding]; metal-binding site 598659000240 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 598659000241 dsRNA binding site [nucleotide binding]; other site 598659000242 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 598659000243 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 598659000244 Tetramer interface [polypeptide binding]; other site 598659000245 active site 598659000246 FMN-binding site [chemical binding]; other site 598659000247 Cupin domain; Region: Cupin_2; pfam07883 598659000248 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 598659000249 ThiS family; Region: ThiS; pfam02597 598659000250 charged pocket; other site 598659000251 hydrophobic patch; other site 598659000252 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 598659000253 MoaE homodimer interface [polypeptide binding]; other site 598659000254 MoaD interaction [polypeptide binding]; other site 598659000255 active site residues [active] 598659000256 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 598659000257 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 598659000258 dimer interface [polypeptide binding]; other site 598659000259 putative functional site; other site 598659000260 putative MPT binding site; other site 598659000261 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; cl00246 598659000262 FAD binding site [chemical binding]; other site 598659000263 Domain of unknown function (DUF1931); Region: DUF1931; pfam09123 598659000264 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 598659000265 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 598659000266 dimer interface [polypeptide binding]; other site 598659000267 active site 598659000268 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 598659000269 catalytic residues [active] 598659000270 substrate binding site [chemical binding]; other site 598659000271 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 598659000272 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 598659000273 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 598659000274 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 598659000275 DNA topoisomerase I; Validated; Region: PRK05582 598659000276 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 598659000277 active site 598659000278 interdomain interaction site; other site 598659000279 putative metal-binding site [ion binding]; other site 598659000280 nucleotide binding site [chemical binding]; other site 598659000281 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 598659000282 domain I; other site 598659000283 DNA binding groove [nucleotide binding] 598659000284 phosphate binding site [ion binding]; other site 598659000285 domain II; other site 598659000286 domain III; other site 598659000287 nucleotide binding site [chemical binding]; other site 598659000288 catalytic site [active] 598659000289 domain IV; other site 598659000290 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 598659000291 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 598659000292 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 598659000293 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 598659000294 active site 598659000295 metal binding site [ion binding]; metal-binding site 598659000296 homotetramer interface [polypeptide binding]; other site 598659000297 biotin synthase; Provisional; Region: PRK08508 598659000298 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 598659000299 FeS/SAM binding site; other site 598659000300 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 598659000301 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 598659000302 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 598659000303 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 598659000304 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 598659000305 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 598659000306 HIGH motif; other site 598659000307 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 598659000308 active site 598659000309 KMSKS motif; other site 598659000310 putative transporter; Provisional; Region: PRK11021 598659000311 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 598659000312 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 598659000313 non-specific DNA binding site [nucleotide binding]; other site 598659000314 salt bridge; other site 598659000315 sequence-specific DNA binding site [nucleotide binding]; other site 598659000316 Predicted permeases [General function prediction only]; Region: RarD; COG2962 598659000317 EamA-like transporter family; Region: EamA; cl17759 598659000318 EamA-like transporter family; Region: EamA; pfam00892 598659000319 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 598659000320 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 598659000321 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 598659000322 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 598659000323 DctM-like transporters; Region: DctM; pfam06808 598659000324 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 598659000325 putative active site [active] 598659000326 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 598659000327 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 598659000328 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 598659000329 Transglycosylase; Region: Transgly; pfam00912 598659000330 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 598659000331 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 598659000332 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 598659000333 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 598659000334 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 598659000335 catalytic residue [active] 598659000336 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 598659000337 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 598659000338 motif 1; other site 598659000339 active site 598659000340 motif 2; other site 598659000341 motif 3; other site 598659000342 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 598659000343 DHHA1 domain; Region: DHHA1; pfam02272 598659000344 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 598659000345 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 598659000346 active site 598659000347 phosphorylation site [posttranslational modification] 598659000348 intermolecular recognition site; other site 598659000349 dimerization interface [polypeptide binding]; other site 598659000350 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 598659000351 DNA binding site [nucleotide binding] 598659000352 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 598659000353 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 598659000354 dimer interface [polypeptide binding]; other site 598659000355 phosphorylation site [posttranslational modification] 598659000356 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 598659000357 ATP binding site [chemical binding]; other site 598659000358 Mg2+ binding site [ion binding]; other site 598659000359 G-X-G motif; other site 598659000360 Maf-like protein; Reviewed; Region: PRK04056 598659000361 Maf-like protein; Region: Maf; pfam02545 598659000362 putative active site [active] 598659000363 Cache domain; Region: Cache_1; pfam02743 598659000364 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 598659000365 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 598659000366 putative active site [active] 598659000367 oxyanion strand; other site 598659000368 catalytic triad [active] 598659000369 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 598659000370 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 598659000371 catalytic residues [active] 598659000372 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 598659000373 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 598659000374 active site 598659000375 phosphorylation site [posttranslational modification] 598659000376 intermolecular recognition site; other site 598659000377 dimerization interface [polypeptide binding]; other site 598659000378 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 598659000379 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 598659000380 S-adenosylmethionine binding site [chemical binding]; other site 598659000381 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 598659000382 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 598659000383 Walker A motif; other site 598659000384 ATP binding site [chemical binding]; other site 598659000385 Walker B motif; other site 598659000386 arginine finger; other site 598659000387 Peptidase family M41; Region: Peptidase_M41; pfam01434 598659000388 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 598659000389 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 598659000390 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 598659000391 2-isopropylmalate synthase; Validated; Region: PRK00915 598659000392 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 598659000393 active site 598659000394 catalytic residues [active] 598659000395 metal binding site [ion binding]; metal-binding site 598659000396 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 598659000397 GTP-binding protein Der; Reviewed; Region: PRK00093 598659000398 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 598659000399 G1 box; other site 598659000400 GTP/Mg2+ binding site [chemical binding]; other site 598659000401 Switch I region; other site 598659000402 G2 box; other site 598659000403 Switch II region; other site 598659000404 G3 box; other site 598659000405 G4 box; other site 598659000406 G5 box; other site 598659000407 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 598659000408 G1 box; other site 598659000409 GTP/Mg2+ binding site [chemical binding]; other site 598659000410 Switch I region; other site 598659000411 G2 box; other site 598659000412 G3 box; other site 598659000413 Switch II region; other site 598659000414 G4 box; other site 598659000415 G5 box; other site 598659000416 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 598659000417 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 598659000418 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 598659000419 active site 598659000420 HIGH motif; other site 598659000421 dimer interface [polypeptide binding]; other site 598659000422 KMSKS motif; other site 598659000423 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 598659000424 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 598659000425 dimerization interface [polypeptide binding]; other site 598659000426 putative ATP binding site [chemical binding]; other site 598659000427 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 598659000428 Uncharacterized conserved protein [Function unknown]; Region: COG3334 598659000429 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659000430 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659000431 metal binding site [ion binding]; metal-binding site 598659000432 active site 598659000433 I-site; other site 598659000434 Protein of unknown function (DUF507); Region: DUF507; pfam04368 598659000435 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 598659000436 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 598659000437 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 598659000438 catalytic site [active] 598659000439 subunit interface [polypeptide binding]; other site 598659000440 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 598659000441 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 598659000442 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 598659000443 active site 598659000444 catalytic site [active] 598659000445 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 598659000446 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 598659000447 active site 598659000448 catalytic site [active] 598659000449 substrate binding site [chemical binding]; other site 598659000450 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 598659000451 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 598659000452 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 598659000453 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 598659000454 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 598659000455 ATP-grasp domain; Region: ATP-grasp_4; cl17255 598659000456 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 598659000457 IMP binding site; other site 598659000458 dimer interface [polypeptide binding]; other site 598659000459 elongation factor Tu; Reviewed; Region: PRK00049 598659000460 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 598659000461 G1 box; other site 598659000462 GEF interaction site [polypeptide binding]; other site 598659000463 GTP/Mg2+ binding site [chemical binding]; other site 598659000464 Switch I region; other site 598659000465 G2 box; other site 598659000466 G3 box; other site 598659000467 Switch II region; other site 598659000468 G4 box; other site 598659000469 G5 box; other site 598659000470 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 598659000471 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 598659000472 Antibiotic Binding Site [chemical binding]; other site 598659000473 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 598659000474 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 598659000475 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 598659000476 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 598659000477 putative homodimer interface [polypeptide binding]; other site 598659000478 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 598659000479 heterodimer interface [polypeptide binding]; other site 598659000480 homodimer interface [polypeptide binding]; other site 598659000481 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 598659000482 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 598659000483 23S rRNA interface [nucleotide binding]; other site 598659000484 L7/L12 interface [polypeptide binding]; other site 598659000485 putative thiostrepton binding site; other site 598659000486 L25 interface [polypeptide binding]; other site 598659000487 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 598659000488 mRNA/rRNA interface [nucleotide binding]; other site 598659000489 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 598659000490 23S rRNA interface [nucleotide binding]; other site 598659000491 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 598659000492 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 598659000493 peripheral dimer interface [polypeptide binding]; other site 598659000494 core dimer interface [polypeptide binding]; other site 598659000495 L10 interface [polypeptide binding]; other site 598659000496 L11 interface [polypeptide binding]; other site 598659000497 putative EF-Tu interaction site [polypeptide binding]; other site 598659000498 putative EF-G interaction site [polypeptide binding]; other site 598659000499 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 598659000500 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 598659000501 RPB11 interaction site [polypeptide binding]; other site 598659000502 RPB12 interaction site [polypeptide binding]; other site 598659000503 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 598659000504 RPB3 interaction site [polypeptide binding]; other site 598659000505 RPB1 interaction site [polypeptide binding]; other site 598659000506 RPB11 interaction site [polypeptide binding]; other site 598659000507 RPB10 interaction site [polypeptide binding]; other site 598659000508 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 598659000509 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 598659000510 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 598659000511 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 598659000512 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 598659000513 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 598659000514 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 598659000515 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 598659000516 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 598659000517 DNA binding site [nucleotide binding] 598659000518 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 598659000519 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 598659000520 S17 interaction site [polypeptide binding]; other site 598659000521 S8 interaction site; other site 598659000522 16S rRNA interaction site [nucleotide binding]; other site 598659000523 streptomycin interaction site [chemical binding]; other site 598659000524 23S rRNA interaction site [nucleotide binding]; other site 598659000525 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 598659000526 30S ribosomal protein S7; Validated; Region: PRK05302 598659000527 elongation factor G; Reviewed; Region: PRK00007 598659000528 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 598659000529 G1 box; other site 598659000530 putative GEF interaction site [polypeptide binding]; other site 598659000531 GTP/Mg2+ binding site [chemical binding]; other site 598659000532 Switch I region; other site 598659000533 G2 box; other site 598659000534 G3 box; other site 598659000535 Switch II region; other site 598659000536 G4 box; other site 598659000537 G5 box; other site 598659000538 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 598659000539 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 598659000540 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 598659000541 molybdenum transport protein ModD; Provisional; Region: PRK06096 598659000542 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 598659000543 active site 598659000544 Protein of unknown function (DUF465); Region: DUF465; cl01070 598659000545 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 598659000546 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 598659000547 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 598659000548 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 598659000549 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 598659000550 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 598659000551 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 598659000552 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 598659000553 dimer interface [polypeptide binding]; other site 598659000554 conserved gate region; other site 598659000555 putative PBP binding loops; other site 598659000556 ABC-ATPase subunit interface; other site 598659000557 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 598659000558 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 598659000559 Walker A/P-loop; other site 598659000560 ATP binding site [chemical binding]; other site 598659000561 Q-loop/lid; other site 598659000562 ABC transporter signature motif; other site 598659000563 Walker B; other site 598659000564 D-loop; other site 598659000565 H-loop/switch region; other site 598659000566 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 598659000567 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 598659000568 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 598659000569 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 598659000570 dimer interface [polypeptide binding]; other site 598659000571 conserved gate region; other site 598659000572 putative PBP binding loops; other site 598659000573 ABC-ATPase subunit interface; other site 598659000574 PhoH-like protein; Region: PhoH; cl17668 598659000575 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05848 598659000576 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 598659000577 dimerization interface [polypeptide binding]; other site 598659000578 active site 598659000579 quinolinate synthetase; Provisional; Region: PRK09375 598659000580 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 598659000581 Dihydroneopterin aldolase; Region: FolB; pfam02152 598659000582 active site 598659000583 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 598659000584 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 598659000585 active site 598659000586 phosphorylation site [posttranslational modification] 598659000587 dimerization interface [polypeptide binding]; other site 598659000588 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 598659000589 DNA binding site [nucleotide binding] 598659000590 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 598659000591 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 598659000592 exopolyphosphatase; Region: exo_poly_only; TIGR03706 598659000593 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 598659000594 nucleotide binding site [chemical binding]; other site 598659000595 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 598659000596 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 598659000597 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 598659000598 Walker A/P-loop; other site 598659000599 ATP binding site [chemical binding]; other site 598659000600 Q-loop/lid; other site 598659000601 ABC transporter signature motif; other site 598659000602 Walker B; other site 598659000603 D-loop; other site 598659000604 H-loop/switch region; other site 598659000605 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 598659000606 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 598659000607 Walker A/P-loop; other site 598659000608 ATP binding site [chemical binding]; other site 598659000609 Q-loop/lid; other site 598659000610 ABC transporter signature motif; other site 598659000611 Walker B; other site 598659000612 D-loop; other site 598659000613 H-loop/switch region; other site 598659000614 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 598659000615 exodeoxyribonuclease X; Provisional; Region: PRK07983 598659000616 active site 598659000617 catalytic site [active] 598659000618 substrate binding site [chemical binding]; other site 598659000619 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 598659000620 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 598659000621 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 598659000622 Nitrogen regulatory protein P-II; Region: P-II; smart00938 598659000623 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; pfam02943 598659000624 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 598659000625 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 598659000626 active site residue [active] 598659000627 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 598659000628 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 598659000629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 598659000630 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 598659000631 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 598659000632 PAS domain S-box; Region: sensory_box; TIGR00229 598659000633 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 598659000634 dimer interface [polypeptide binding]; other site 598659000635 putative CheW interface [polypeptide binding]; other site 598659000636 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 598659000637 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 598659000638 putative active site; other site 598659000639 catalytic triad [active] 598659000640 putative dimer interface [polypeptide binding]; other site 598659000641 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 598659000642 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 598659000643 substrate binding pocket [chemical binding]; other site 598659000644 membrane-bound complex binding site; other site 598659000645 hinge residues; other site 598659000646 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659000647 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659000648 metal binding site [ion binding]; metal-binding site 598659000649 active site 598659000650 I-site; other site 598659000651 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 598659000652 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 598659000653 substrate binding site [chemical binding]; other site 598659000654 hexamer interface [polypeptide binding]; other site 598659000655 metal binding site [ion binding]; metal-binding site 598659000656 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 598659000657 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 598659000658 active site 598659000659 Domain of unknown function (DUF814); Region: DUF814; pfam05670 598659000660 threonyl-tRNA synthetase; Reviewed; Region: PRK12444 598659000661 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 598659000662 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 598659000663 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 598659000664 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 598659000665 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 598659000666 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 598659000667 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 598659000668 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 598659000669 active site 598659000670 motif I; other site 598659000671 motif II; other site 598659000672 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 598659000673 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 598659000674 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 598659000675 TrkA-N domain; Region: TrkA_N; pfam02254 598659000676 TrkA-N domain; Region: TrkA_N; pfam02254 598659000677 pyruvate flavodoxin oxidoreductase subunit gamma; Validated; Region: PRK05844 598659000678 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 598659000679 pyruvate flavodoxin oxidoreductase subunit delta; Reviewed; Region: porD; PRK09625 598659000680 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 598659000681 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 598659000682 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 598659000683 dimer interface [polypeptide binding]; other site 598659000684 PYR/PP interface [polypeptide binding]; other site 598659000685 TPP binding site [chemical binding]; other site 598659000686 substrate binding site [chemical binding]; other site 598659000687 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 598659000688 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 598659000689 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 598659000690 TPP-binding site [chemical binding]; other site 598659000691 putative dimer interface [polypeptide binding]; other site 598659000692 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 598659000693 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 598659000694 Cl- selectivity filter; other site 598659000695 Cl- binding residues [ion binding]; other site 598659000696 pore gating glutamate residue; other site 598659000697 dimer interface [polypeptide binding]; other site 598659000698 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 598659000699 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 598659000700 oligomer interface [polypeptide binding]; other site 598659000701 metal binding site [ion binding]; metal-binding site 598659000702 metal binding site [ion binding]; metal-binding site 598659000703 putative Cl binding site [ion binding]; other site 598659000704 aspartate ring; other site 598659000705 basic sphincter; other site 598659000706 hydrophobic gate; other site 598659000707 periplasmic entrance; other site 598659000708 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 598659000709 TPR motif; other site 598659000710 binding surface 598659000711 putative metal dependent hydrolase; Provisional; Region: PRK11598 598659000712 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 598659000713 Sulfatase; Region: Sulfatase; pfam00884 598659000714 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 598659000715 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 598659000716 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 598659000717 dimer interface [polypeptide binding]; other site 598659000718 phosphorylation site [posttranslational modification] 598659000719 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 598659000720 ATP binding site [chemical binding]; other site 598659000721 Mg2+ binding site [ion binding]; other site 598659000722 G-X-G motif; other site 598659000723 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 598659000724 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 598659000725 active site 598659000726 phosphorylation site [posttranslational modification] 598659000727 intermolecular recognition site; other site 598659000728 dimerization interface [polypeptide binding]; other site 598659000729 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 598659000730 DNA binding site [nucleotide binding] 598659000731 UGMP family protein; Validated; Region: PRK09604 598659000732 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 598659000733 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 598659000734 CTP synthetase; Validated; Region: pyrG; PRK05380 598659000735 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 598659000736 Catalytic site [active] 598659000737 active site 598659000738 UTP binding site [chemical binding]; other site 598659000739 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 598659000740 active site 598659000741 putative oxyanion hole; other site 598659000742 catalytic triad [active] 598659000743 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 598659000744 DHH family; Region: DHH; pfam01368 598659000745 DHHA1 domain; Region: DHHA1; pfam02272 598659000746 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 598659000747 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 598659000748 ligand binding site [chemical binding]; other site 598659000749 flexible hinge region; other site 598659000750 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 598659000751 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 598659000752 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659000753 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659000754 metal binding site [ion binding]; metal-binding site 598659000755 active site 598659000756 I-site; other site 598659000757 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 598659000758 hypothetical protein; Reviewed; Region: PRK12497 598659000759 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 598659000760 active site 598659000761 flavoprotein, HI0933 family; Region: TIGR00275 598659000762 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 598659000763 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 598659000764 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 598659000765 active site 598659000766 DNA binding site [nucleotide binding] 598659000767 Int/Topo IB signature motif; other site 598659000768 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 598659000769 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 598659000770 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 598659000771 FeS/SAM binding site; other site 598659000772 TRAM domain; Region: TRAM; pfam01938 598659000773 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 598659000774 NusA N-terminal domain; Region: NusA_N; pfam08529 598659000775 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 598659000776 RNA binding site [nucleotide binding]; other site 598659000777 homodimer interface [polypeptide binding]; other site 598659000778 NusA-like KH domain; Region: KH_5; pfam13184 598659000779 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 598659000780 G-X-X-G motif; other site 598659000781 hypothetical protein; Provisional; Region: PRK14013 598659000782 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 598659000783 FAD binding domain; Region: FAD_binding_4; pfam01565 598659000784 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 598659000785 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 598659000786 PemK-like protein; Region: PemK; pfam02452 598659000787 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 598659000788 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659000789 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659000790 metal binding site [ion binding]; metal-binding site 598659000791 active site 598659000792 I-site; other site 598659000793 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 598659000794 recombinase A; Provisional; Region: recA; PRK09354 598659000795 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 598659000796 hexamer interface [polypeptide binding]; other site 598659000797 Walker A motif; other site 598659000798 ATP binding site [chemical binding]; other site 598659000799 Walker B motif; other site 598659000800 enolase; Provisional; Region: eno; PRK00077 598659000801 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 598659000802 dimer interface [polypeptide binding]; other site 598659000803 metal binding site [ion binding]; metal-binding site 598659000804 substrate binding pocket [chemical binding]; other site 598659000805 Septum formation initiator; Region: DivIC; cl17659 598659000806 AMIN domain; Region: AMIN; pfam11741 598659000807 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 598659000808 Shikimate kinase; Region: SKI; pfam01202 598659000809 ADP binding site [chemical binding]; other site 598659000810 magnesium binding site [ion binding]; other site 598659000811 putative shikimate binding site; other site 598659000812 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 598659000813 active site 598659000814 Fe-S cluster binding site [ion binding]; other site 598659000815 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 598659000816 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 598659000817 active site 598659000818 substrate binding site [chemical binding]; other site 598659000819 cosubstrate binding site; other site 598659000820 catalytic site [active] 598659000821 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 598659000822 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 598659000823 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 598659000824 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 598659000825 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 598659000826 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 598659000827 tandem repeat interface [polypeptide binding]; other site 598659000828 oligomer interface [polypeptide binding]; other site 598659000829 active site residues [active] 598659000830 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 598659000831 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 598659000832 Mg++ binding site [ion binding]; other site 598659000833 putative catalytic motif [active] 598659000834 putative substrate binding site [chemical binding]; other site 598659000835 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 598659000836 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 598659000837 NAD(P) binding site [chemical binding]; other site 598659000838 active site 598659000839 acyl carrier protein; Provisional; Region: acpP; PRK00982 598659000840 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 598659000841 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 598659000842 dimer interface [polypeptide binding]; other site 598659000843 active site 598659000844 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 598659000845 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 598659000846 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 598659000847 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 598659000848 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 598659000849 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 598659000850 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 598659000851 Chemotaxis phosphatase CheX; Region: CheX; cl15816 598659000852 flagellar motor switch protein; Validated; Region: PRK08433 598659000853 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 598659000854 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 598659000855 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 598659000856 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 598659000857 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 598659000858 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 598659000859 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 598659000860 dimer interface [polypeptide binding]; other site 598659000861 phosphorylation site [posttranslational modification] 598659000862 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 598659000863 ATP binding site [chemical binding]; other site 598659000864 Mg2+ binding site [ion binding]; other site 598659000865 G-X-G motif; other site 598659000866 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 598659000867 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 598659000868 active site 598659000869 phosphorylation site [posttranslational modification] 598659000870 intermolecular recognition site; other site 598659000871 dimerization interface [polypeptide binding]; other site 598659000872 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 598659000873 DNA binding site [nucleotide binding] 598659000874 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 598659000875 PBP superfamily domain; Region: PBP_like_2; cl17296 598659000876 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 598659000877 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 598659000878 dimer interface [polypeptide binding]; other site 598659000879 conserved gate region; other site 598659000880 putative PBP binding loops; other site 598659000881 ABC-ATPase subunit interface; other site 598659000882 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 598659000883 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 598659000884 dimer interface [polypeptide binding]; other site 598659000885 conserved gate region; other site 598659000886 putative PBP binding loops; other site 598659000887 ABC-ATPase subunit interface; other site 598659000888 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 598659000889 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 598659000890 Walker A/P-loop; other site 598659000891 ATP binding site [chemical binding]; other site 598659000892 Q-loop/lid; other site 598659000893 ABC transporter signature motif; other site 598659000894 Walker B; other site 598659000895 D-loop; other site 598659000896 H-loop/switch region; other site 598659000897 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 598659000898 Phosphate transporter family; Region: PHO4; pfam01384 598659000899 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 598659000900 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 598659000901 putative active site [active] 598659000902 substrate binding site [chemical binding]; other site 598659000903 putative cosubstrate binding site; other site 598659000904 catalytic site [active] 598659000905 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 598659000906 substrate binding site [chemical binding]; other site 598659000907 biotin--protein ligase; Provisional; Region: PRK08477 598659000908 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 598659000909 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 598659000910 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 598659000911 P-loop; other site 598659000912 Magnesium ion binding site [ion binding]; other site 598659000913 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 598659000914 Magnesium ion binding site [ion binding]; other site 598659000915 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 598659000916 ParB-like nuclease domain; Region: ParB; smart00470 598659000917 KorB domain; Region: KorB; pfam08535 598659000918 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 598659000919 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 598659000920 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 598659000921 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 598659000922 F0F1 ATP synthase subunit delta; Validated; Region: PRK08474 598659000923 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 598659000924 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 598659000925 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 598659000926 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 598659000927 beta subunit interaction interface [polypeptide binding]; other site 598659000928 Walker A motif; other site 598659000929 ATP binding site [chemical binding]; other site 598659000930 Walker B motif; other site 598659000931 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 598659000932 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 598659000933 core domain interface [polypeptide binding]; other site 598659000934 delta subunit interface [polypeptide binding]; other site 598659000935 epsilon subunit interface [polypeptide binding]; other site 598659000936 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 598659000937 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 598659000938 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 598659000939 alpha subunit interaction interface [polypeptide binding]; other site 598659000940 Walker A motif; other site 598659000941 ATP binding site [chemical binding]; other site 598659000942 Walker B motif; other site 598659000943 inhibitor binding site; inhibition site 598659000944 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 598659000945 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 598659000946 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 598659000947 gamma subunit interface [polypeptide binding]; other site 598659000948 epsilon subunit interface [polypeptide binding]; other site 598659000949 LBP interface [polypeptide binding]; other site 598659000950 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 598659000951 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 598659000952 TolR protein; Region: tolR; TIGR02801 598659000953 translocation protein TolB; Provisional; Region: tolB; PRK04043 598659000954 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 598659000955 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 598659000956 ligand binding site [chemical binding]; other site 598659000957 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 598659000958 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 598659000959 binding surface 598659000960 TPR motif; other site 598659000961 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 598659000962 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 598659000963 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 598659000964 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 598659000965 Predicted amidohydrolase [General function prediction only]; Region: COG0388 598659000966 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 598659000967 active site 598659000968 catalytic triad [active] 598659000969 dimer interface [polypeptide binding]; other site 598659000970 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 598659000971 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 598659000972 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 598659000973 Ligand Binding Site [chemical binding]; other site 598659000974 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 598659000975 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 598659000976 Ligand Binding Site [chemical binding]; other site 598659000977 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 598659000978 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 598659000979 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 598659000980 active site 598659000981 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 598659000982 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2; cl00208 598659000983 CAS motifs; other site 598659000984 active site 598659000985 amino acid transporter; Region: 2A0306; TIGR00909 598659000986 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 598659000987 tetramer interfaces [polypeptide binding]; other site 598659000988 binuclear metal-binding site [ion binding]; other site 598659000989 ATP sulfurylase (sulfate adenylyltransferase) [Inorganic ion transport and metabolism]; Region: MET3; COG2046 598659000990 ATP-sulfurylase; Region: ATP-sulfurylase; pfam01747 598659000991 Response regulator receiver domain; Region: Response_reg; pfam00072 598659000992 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 598659000993 active site 598659000994 phosphorylation site [posttranslational modification] 598659000995 intermolecular recognition site; other site 598659000996 dimerization interface [polypeptide binding]; other site 598659000997 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 598659000998 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 598659000999 substrate binding site; other site 598659001000 dimer interface; other site 598659001001 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 598659001002 homotrimer interaction site [polypeptide binding]; other site 598659001003 zinc binding site [ion binding]; other site 598659001004 CDP-binding sites; other site 598659001005 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 598659001006 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 598659001007 ThiC family; Region: ThiC; pfam01964 598659001008 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 598659001009 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 598659001010 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 598659001011 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 598659001012 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 598659001013 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 598659001014 S-adenosylmethionine binding site [chemical binding]; other site 598659001015 Protein of unknown function (DUF502); Region: DUF502; cl01107 598659001016 Part of AAA domain; Region: AAA_19; pfam13245 598659001017 putative recombination protein RecB; Provisional; Region: PRK13909 598659001018 Family description; Region: UvrD_C_2; pfam13538 598659001019 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 598659001020 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 598659001021 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 598659001022 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 598659001023 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 598659001024 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 598659001025 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 598659001026 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 598659001027 dimer interface [polypeptide binding]; other site 598659001028 putative CheW interface [polypeptide binding]; other site 598659001029 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 598659001030 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 598659001031 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 598659001032 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 598659001033 trimer interface [polypeptide binding]; other site 598659001034 active site 598659001035 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 598659001036 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 598659001037 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 598659001038 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 598659001039 putative active site [active] 598659001040 putative metal binding site [ion binding]; other site 598659001041 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 598659001042 putative CheA interaction surface; other site 598659001043 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 598659001044 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 598659001045 active site 598659001046 phosphorylation site [posttranslational modification] 598659001047 intermolecular recognition site; other site 598659001048 dimerization interface [polypeptide binding]; other site 598659001049 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 598659001050 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 598659001051 putative binding surface; other site 598659001052 active site 598659001053 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 598659001054 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 598659001055 ATP binding site [chemical binding]; other site 598659001056 Mg2+ binding site [ion binding]; other site 598659001057 G-X-G motif; other site 598659001058 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 598659001059 Response regulator receiver domain; Region: Response_reg; pfam00072 598659001060 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 598659001061 active site 598659001062 phosphorylation site [posttranslational modification] 598659001063 intermolecular recognition site; other site 598659001064 dimerization interface [polypeptide binding]; other site 598659001065 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 598659001066 arginine decarboxylase; Provisional; Region: PRK05354 598659001067 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 598659001068 active site 598659001069 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 598659001070 dimer interface [polypeptide binding]; other site 598659001071 catalytic residues [active] 598659001072 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 598659001073 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 598659001074 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 598659001075 dimer interface [polypeptide binding]; other site 598659001076 motif 1; other site 598659001077 active site 598659001078 motif 2; other site 598659001079 motif 3; other site 598659001080 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 598659001081 anticodon binding site; other site 598659001082 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 598659001083 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 598659001084 putative active site [active] 598659001085 metal binding site [ion binding]; metal-binding site 598659001086 homodimer binding site [polypeptide binding]; other site 598659001087 3-methyladenine DNA glycosylase; Provisional; Region: PRK13913 598659001088 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 598659001089 minor groove reading motif; other site 598659001090 helix-hairpin-helix signature motif; other site 598659001091 active site 598659001092 Protein of unknown function DUF45; Region: DUF45; pfam01863 598659001093 RmuC family; Region: RmuC; pfam02646 598659001094 The Sema domain, a protein interacting module, of semaphorins and plexins; Region: Sema; cl15693 598659001095 DNA polymerase I; Provisional; Region: PRK05755 598659001096 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 598659001097 active site 598659001098 metal binding site 1 [ion binding]; metal-binding site 598659001099 putative 5' ssDNA interaction site; other site 598659001100 metal binding site 3; metal-binding site 598659001101 metal binding site 2 [ion binding]; metal-binding site 598659001102 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 598659001103 putative DNA binding site [nucleotide binding]; other site 598659001104 putative metal binding site [ion binding]; other site 598659001105 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 598659001106 active site 598659001107 catalytic site [active] 598659001108 substrate binding site [chemical binding]; other site 598659001109 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 598659001110 active site 598659001111 DNA binding site [nucleotide binding] 598659001112 catalytic site [active] 598659001113 FOG: WD40 repeat [General function prediction only]; Region: COG2319 598659001114 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 598659001115 structural tetrad; other site 598659001116 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 598659001117 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 598659001118 GTP binding site; other site 598659001119 molybdenum cofactor biosynthesis protein MoaC; Provisional; Region: moaC; PRK09364 598659001120 trimer interface [polypeptide binding]; other site 598659001121 dimer interface [polypeptide binding]; other site 598659001122 putative active site [active] 598659001123 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 598659001124 active site residue [active] 598659001125 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 598659001126 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 598659001127 active site residue [active] 598659001128 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 598659001129 Protein export membrane protein; Region: SecD_SecF; cl14618 598659001130 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 598659001131 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 598659001132 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 598659001133 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 598659001134 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 598659001135 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 598659001136 dinuclear metal binding motif [ion binding]; other site 598659001137 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 598659001138 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 598659001139 FeS/SAM binding site; other site 598659001140 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 598659001141 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cd00296 598659001142 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 598659001143 putative active site pocket [active] 598659001144 dimerization interface [polypeptide binding]; other site 598659001145 putative catalytic residue [active] 598659001146 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 598659001147 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 598659001148 active site 598659001149 phosphorylation site [posttranslational modification] 598659001150 intermolecular recognition site; other site 598659001151 dimerization interface [polypeptide binding]; other site 598659001152 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 598659001153 DNA binding site [nucleotide binding] 598659001154 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 598659001155 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 598659001156 dimer interface [polypeptide binding]; other site 598659001157 phosphorylation site [posttranslational modification] 598659001158 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 598659001159 ATP binding site [chemical binding]; other site 598659001160 Mg2+ binding site [ion binding]; other site 598659001161 G-X-G motif; other site 598659001162 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 598659001163 putative DNA binding site [nucleotide binding]; other site 598659001164 dimerization interface [polypeptide binding]; other site 598659001165 putative Zn2+ binding site [ion binding]; other site 598659001166 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 598659001167 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_3; cd09321 598659001168 gating phenylalanine in ion channel; other site 598659001169 Uncharacterized protein domain (DUF2202); Region: DUF2202; pfam09968 598659001170 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 598659001171 diiron binding motif [ion binding]; other site 598659001172 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 598659001173 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 598659001174 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 598659001175 diiron binding motif [ion binding]; other site 598659001176 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 598659001177 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 598659001178 Nitrogen regulatory protein P-II; Region: P-II; smart00938 598659001179 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 598659001180 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 598659001181 ATP-grasp domain; Region: ATP-grasp; pfam02222 598659001182 FeoA domain; Region: FeoA; pfam04023 598659001183 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 598659001184 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 598659001185 G1 box; other site 598659001186 GTP/Mg2+ binding site [chemical binding]; other site 598659001187 Switch I region; other site 598659001188 G2 box; other site 598659001189 G3 box; other site 598659001190 Switch II region; other site 598659001191 G4 box; other site 598659001192 G5 box; other site 598659001193 Nucleoside recognition; Region: Gate; pfam07670 598659001194 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 598659001195 Nucleoside recognition; Region: Gate; pfam07670 598659001196 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 598659001197 ATP cone domain; Region: ATP-cone; pfam03477 598659001198 Class I ribonucleotide reductase; Region: RNR_I; cd01679 598659001199 active site 598659001200 dimer interface [polypeptide binding]; other site 598659001201 catalytic residues [active] 598659001202 effector binding site; other site 598659001203 R2 peptide binding site; other site 598659001204 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 598659001205 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 598659001206 dimer interface [polypeptide binding]; other site 598659001207 putative radical transfer pathway; other site 598659001208 diiron center [ion binding]; other site 598659001209 tyrosyl radical; other site 598659001210 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 598659001211 Protein of unknown function (DUF541); Region: SIMPL; cl01077 598659001212 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 598659001213 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 598659001214 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 598659001215 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 598659001216 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 598659001217 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 598659001218 hypothetical protein; Provisional; Region: PRK04205 598659001219 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; cd00562 598659001220 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 598659001221 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 598659001222 Low molecular weight phosphatase family; Region: LMWPc; cl00105 598659001223 active site 598659001224 MarC family integral membrane protein; Region: MarC; pfam01914 598659001225 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 598659001226 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 598659001227 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 598659001228 ligand binding site [chemical binding]; other site 598659001229 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 598659001230 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 598659001231 23S rRNA binding site [nucleotide binding]; other site 598659001232 L21 binding site [polypeptide binding]; other site 598659001233 L13 binding site [polypeptide binding]; other site 598659001234 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 598659001235 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 598659001236 FOG: CBS domain [General function prediction only]; Region: COG0517 598659001237 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659001238 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659001239 metal binding site [ion binding]; metal-binding site 598659001240 active site 598659001241 I-site; other site 598659001242 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 598659001243 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 598659001244 dimer interface [polypeptide binding]; other site 598659001245 active site 598659001246 CoA binding pocket [chemical binding]; other site 598659001247 putative phosphate acyltransferase; Provisional; Region: PRK05331 598659001248 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 598659001249 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 598659001250 Nucleoside diphosphate kinases (NDP kinases, NDPks): NDP kinases, responsible for the synthesis of nucleoside triphosphates (NTPs), are involved in numerous regulatory processes associated with proliferation, development, and differentiation. They are...; Region: NDPk; cl00335 598659001251 multimer interface [polypeptide binding]; other site 598659001252 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 598659001253 Oxygen tolerance; Region: BatD; pfam13584 598659001254 von Willebrand factor type A domain; Region: VWA_2; pfam13519 598659001255 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 598659001256 metal ion-dependent adhesion site (MIDAS); other site 598659001257 Protein of unknown function DUF58; Region: DUF58; pfam01882 598659001258 MoxR-like ATPases [General function prediction only]; Region: COG0714 598659001259 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 598659001260 Walker A motif; other site 598659001261 ATP binding site [chemical binding]; other site 598659001262 Walker B motif; other site 598659001263 arginine finger; other site 598659001264 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 598659001265 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 598659001266 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 598659001267 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 598659001268 dimer interface [polypeptide binding]; other site 598659001269 putative CheW interface [polypeptide binding]; other site 598659001270 Response regulator receiver domain; Region: Response_reg; pfam00072 598659001271 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 598659001272 active site 598659001273 phosphorylation site [posttranslational modification] 598659001274 intermolecular recognition site; other site 598659001275 dimerization interface [polypeptide binding]; other site 598659001276 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 598659001277 Transposase IS200 like; Region: Y1_Tnp; cl00848 598659001278 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 598659001279 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 598659001280 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 598659001281 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 598659001282 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 598659001283 catalytic residues [active] 598659001284 Desulfoferrodoxin; Region: Desulfoferrodox; pfam01880 598659001285 non-heme iron binding site [ion binding]; other site 598659001286 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 598659001287 transmembrane helices; other site 598659001288 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 598659001289 S-ribosylhomocysteinase; Provisional; Region: PRK02260 598659001290 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 598659001291 rRNA interaction site [nucleotide binding]; other site 598659001292 S8 interaction site; other site 598659001293 putative laminin-1 binding site; other site 598659001294 elongation factor Ts; Provisional; Region: tsf; PRK09377 598659001295 UBA/TS-N domain; Region: UBA; pfam00627 598659001296 Elongation factor TS; Region: EF_TS; pfam00889 598659001297 Elongation factor TS; Region: EF_TS; pfam00889 598659001298 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 598659001299 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 598659001300 Walker A/P-loop; other site 598659001301 ATP binding site [chemical binding]; other site 598659001302 Q-loop/lid; other site 598659001303 ABC transporter signature motif; other site 598659001304 Walker B; other site 598659001305 D-loop; other site 598659001306 H-loop/switch region; other site 598659001307 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 598659001308 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 598659001309 PLD-like domain; Region: PLDc_2; pfam13091 598659001310 putative active site [active] 598659001311 catalytic site [active] 598659001312 Response regulator receiver domain; Region: Response_reg; pfam00072 598659001313 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 598659001314 active site 598659001315 phosphorylation site [posttranslational modification] 598659001316 intermolecular recognition site; other site 598659001317 dimerization interface [polypeptide binding]; other site 598659001318 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 598659001319 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 598659001320 catalytic site [active] 598659001321 G-X2-G-X-G-K; other site 598659001322 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 598659001323 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 598659001324 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 598659001325 active site 598659001326 HIGH motif; other site 598659001327 KMSK motif region; other site 598659001328 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 598659001329 tRNA binding surface [nucleotide binding]; other site 598659001330 anticodon binding site; other site 598659001331 Protein of unknown function (DUF523); Region: DUF523; pfam04463 598659001332 Oligomerisation domain; Region: Oligomerisation; cl00519 598659001333 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 598659001334 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 598659001335 active site 598659001336 (T/H)XGH motif; other site 598659001337 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 598659001338 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 598659001339 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 598659001340 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 598659001341 Phosphoglycerate kinase; Region: PGK; pfam00162 598659001342 substrate binding site [chemical binding]; other site 598659001343 hinge regions; other site 598659001344 ADP binding site [chemical binding]; other site 598659001345 catalytic site [active] 598659001346 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 598659001347 triosephosphate isomerase; Provisional; Region: PRK14565 598659001348 substrate binding site [chemical binding]; other site 598659001349 dimer interface [polypeptide binding]; other site 598659001350 catalytic triad [active] 598659001351 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 598659001352 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 598659001353 NAD binding site [chemical binding]; other site 598659001354 homotetramer interface [polypeptide binding]; other site 598659001355 homodimer interface [polypeptide binding]; other site 598659001356 substrate binding site [chemical binding]; other site 598659001357 active site 598659001358 Campylobacter major outer membrane protein; Region: Campylo_MOMP; pfam05538 598659001359 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 598659001360 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 598659001361 ligand binding site [chemical binding]; other site 598659001362 flexible hinge region; other site 598659001363 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 598659001364 DNA binding site [nucleotide binding] 598659001365 sequence specific DNA binding site [nucleotide binding]; other site 598659001366 putative cAMP binding site [chemical binding]; other site 598659001367 homoserine dehydrogenase; Provisional; Region: PRK06349 598659001368 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 598659001369 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 598659001370 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 598659001371 aspartate aminotransferase; Provisional; Region: PRK08636 598659001372 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 598659001373 pyridoxal 5'-phosphate binding site [chemical binding]; other site 598659001374 homodimer interface [polypeptide binding]; other site 598659001375 catalytic residue [active] 598659001376 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 598659001377 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 598659001378 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 598659001379 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 598659001380 S-adenosylmethionine synthetase; Validated; Region: PRK05250 598659001381 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 598659001382 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 598659001383 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 598659001384 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 598659001385 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 598659001386 THF binding site; other site 598659001387 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 598659001388 substrate binding site [chemical binding]; other site 598659001389 THF binding site; other site 598659001390 zinc-binding site [ion binding]; other site 598659001391 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 598659001392 Fe-S cluster binding site [ion binding]; other site 598659001393 active site 598659001394 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 598659001395 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 598659001396 Mechanosensitive ion channel; Region: MS_channel; pfam00924 598659001397 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 598659001398 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 598659001399 active site 598659001400 dimer interface [polypeptide binding]; other site 598659001401 metal binding site [ion binding]; metal-binding site 598659001402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 598659001403 TrkA-C domain; Region: TrkA_C; pfam02080 598659001404 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 598659001405 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 598659001406 PilZ domain; Region: PilZ; pfam07238 598659001407 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 598659001408 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 598659001409 S-adenosylmethionine binding site [chemical binding]; other site 598659001410 FlaG protein; Region: FlaG; cl00591 598659001411 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 598659001412 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 598659001413 flagellar protein FliS; Validated; Region: fliS; PRK05685 598659001414 Domain of unknown function DUF302; Region: DUF302; cl01364 598659001415 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 598659001416 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 598659001417 gating phenylalanine in ion channel; other site 598659001418 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 598659001419 active site residue [active] 598659001420 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 598659001421 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 598659001422 Global regulator protein family; Region: CsrA; pfam02599 598659001423 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK04099 598659001424 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 598659001425 active site 598659001426 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 598659001427 Part of AAA domain; Region: AAA_19; pfam13245 598659001428 Family description; Region: UvrD_C_2; pfam13538 598659001429 Transcriptional regulator [Transcription]; Region: LysR; COG0583 598659001430 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 598659001431 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 598659001432 dimerization interface [polypeptide binding]; other site 598659001433 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 598659001434 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 598659001435 active site 598659001436 Zn binding site [ion binding]; other site 598659001437 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 598659001438 glutamine synthetase, type I; Region: GlnA; TIGR00653 598659001439 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 598659001440 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 598659001441 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 598659001442 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 598659001443 active site 598659001444 phosphorylation site [posttranslational modification] 598659001445 intermolecular recognition site; other site 598659001446 dimerization interface [polypeptide binding]; other site 598659001447 Response regulator receiver domain; Region: Response_reg; pfam00072 598659001448 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 598659001449 active site 598659001450 phosphorylation site [posttranslational modification] 598659001451 intermolecular recognition site; other site 598659001452 dimerization interface [polypeptide binding]; other site 598659001453 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659001454 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659001455 metal binding site [ion binding]; metal-binding site 598659001456 active site 598659001457 I-site; other site 598659001458 para-aminobenzoate synthase component I; Validated; Region: PRK07093 598659001459 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 598659001460 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 598659001461 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 598659001462 Methyltransferase domain; Region: Methyltransf_31; pfam13847 598659001463 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 598659001464 S-adenosylmethionine binding site [chemical binding]; other site 598659001465 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 598659001466 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 598659001467 metal binding site [ion binding]; metal-binding site 598659001468 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 598659001469 active site clefts [active] 598659001470 zinc binding site [ion binding]; other site 598659001471 dimer interface [polypeptide binding]; other site 598659001472 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 598659001473 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 598659001474 active site 598659001475 metal binding site [ion binding]; metal-binding site 598659001476 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 598659001477 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 598659001478 FMN binding site [chemical binding]; other site 598659001479 substrate binding site [chemical binding]; other site 598659001480 putative catalytic residue [active] 598659001481 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 598659001482 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 598659001483 active site 598659001484 HIGH motif; other site 598659001485 dimer interface [polypeptide binding]; other site 598659001486 KMSKS motif; other site 598659001487 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 598659001488 RNA binding surface [nucleotide binding]; other site 598659001489 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 598659001490 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 598659001491 Zn2+ binding site [ion binding]; other site 598659001492 Mg2+ binding site [ion binding]; other site 598659001493 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 598659001494 synthetase active site [active] 598659001495 NTP binding site [chemical binding]; other site 598659001496 metal binding site [ion binding]; metal-binding site 598659001497 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 598659001498 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 598659001499 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 598659001500 putative nucleotide binding site [chemical binding]; other site 598659001501 uridine monophosphate binding site [chemical binding]; other site 598659001502 homohexameric interface [polypeptide binding]; other site 598659001503 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 598659001504 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 598659001505 RNA binding surface [nucleotide binding]; other site 598659001506 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 598659001507 active site 598659001508 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 598659001509 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 598659001510 Interdomain contacts; other site 598659001511 Cytokine receptor motif; other site 598659001512 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 598659001513 Interdomain contacts; other site 598659001514 Cytokine receptor motif; other site 598659001515 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 598659001516 S-adenosylmethionine binding site [chemical binding]; other site 598659001517 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 598659001518 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 598659001519 Walker A/P-loop; other site 598659001520 ATP binding site [chemical binding]; other site 598659001521 Q-loop/lid; other site 598659001522 ABC transporter signature motif; other site 598659001523 Walker B; other site 598659001524 D-loop; other site 598659001525 H-loop/switch region; other site 598659001526 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 598659001527 Peptidase family M23; Region: Peptidase_M23; pfam01551 598659001528 transcription termination factor Rho; Provisional; Region: rho; PRK09376 598659001529 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 598659001530 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 598659001531 RNA binding site [nucleotide binding]; other site 598659001532 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 598659001533 multimer interface [polypeptide binding]; other site 598659001534 Walker A motif; other site 598659001535 ATP binding site [chemical binding]; other site 598659001536 Walker B motif; other site 598659001537 glutamate racemase; Provisional; Region: PRK00865 598659001538 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 598659001539 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 598659001540 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 598659001541 classical (c) SDRs; Region: SDR_c; cd05233 598659001542 NAD(P) binding site [chemical binding]; other site 598659001543 active site 598659001544 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 598659001545 Radical SAM superfamily; Region: Radical_SAM; pfam04055 598659001546 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 598659001547 Domain of unknown function (DUF309); Region: DUF309; pfam03745 598659001548 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 598659001549 active site 598659001550 TIGR03546 family protein; Region: TIGR03546 598659001551 TIGR03545 family protein; Region: TIGR03545 598659001552 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 598659001553 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 598659001554 putative CheW interface [polypeptide binding]; other site 598659001555 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 598659001556 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 598659001557 PAS domain; Region: PAS_9; pfam13426 598659001558 putative active site [active] 598659001559 heme pocket [chemical binding]; other site 598659001560 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 598659001561 LIM is a small protein-protein interaction domain, containing two zinc fingers; Region: LIM; cl02475 598659001562 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 598659001563 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 598659001564 S-adenosylmethionine binding site [chemical binding]; other site 598659001565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 598659001566 NAD(P) binding site [chemical binding]; other site 598659001567 active site 598659001568 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 598659001569 dimerization interface [polypeptide binding]; other site 598659001570 active site 598659001571 ornithine carbamoyltransferase; Provisional; Region: PRK00779 598659001572 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 598659001573 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 598659001574 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 598659001575 peroxiredoxin; Region: AhpC; TIGR03137 598659001576 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 598659001577 dimer interface [polypeptide binding]; other site 598659001578 decamer (pentamer of dimers) interface [polypeptide binding]; other site 598659001579 catalytic triad [active] 598659001580 peroxidatic and resolving cysteines [active] 598659001581 ferric uptake regulator; Provisional; Region: fur; PRK09462 598659001582 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 598659001583 metal binding site 2 [ion binding]; metal-binding site 598659001584 putative DNA binding helix; other site 598659001585 metal binding site 1 [ion binding]; metal-binding site 598659001586 dimer interface [polypeptide binding]; other site 598659001587 structural Zn2+ binding site [ion binding]; other site 598659001588 Protein of unknown function (DUF503); Region: DUF503; cl00669 598659001589 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 598659001590 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 598659001591 domain interfaces; other site 598659001592 active site 598659001593 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 598659001594 structural tetrad; other site 598659001595 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 598659001596 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 598659001597 4Fe-4S binding domain; Region: Fer4; pfam00037 598659001598 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 598659001599 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 598659001600 4Fe-4S binding domain; Region: Fer4_5; pfam12801 598659001601 4Fe-4S binding domain; Region: Fer4_5; pfam12801 598659001602 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 598659001603 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 598659001604 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 598659001605 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 598659001606 molybdopterin cofactor binding site; other site 598659001607 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 598659001608 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 598659001609 molybdopterin cofactor binding site; other site 598659001610 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 598659001611 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 598659001612 active site 598659001613 phosphorylation site [posttranslational modification] 598659001614 intermolecular recognition site; other site 598659001615 dimerization interface [polypeptide binding]; other site 598659001616 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 598659001617 DNA binding site [nucleotide binding] 598659001618 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 598659001619 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 598659001620 dimer interface [polypeptide binding]; other site 598659001621 phosphorylation site [posttranslational modification] 598659001622 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 598659001623 ATP binding site [chemical binding]; other site 598659001624 G-X-G motif; other site 598659001625 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 598659001626 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 598659001627 catalytic residues [active] 598659001628 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 598659001629 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 598659001630 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 598659001631 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 598659001632 tRNA; other site 598659001633 putative tRNA binding site [nucleotide binding]; other site 598659001634 putative NADP binding site [chemical binding]; other site 598659001635 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 598659001636 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 598659001637 substrate binding site [chemical binding]; other site 598659001638 active site 598659001639 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 598659001640 dimer interface [polypeptide binding]; other site 598659001641 active site 598659001642 Schiff base residues; other site 598659001643 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 598659001644 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; cl17708 598659001645 domain interfaces; other site 598659001646 active site 598659001647 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 598659001648 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 598659001649 FeS/SAM binding site; other site 598659001650 HemN C-terminal domain; Region: HemN_C; pfam06969 598659001651 NADH dehydrogenase subunit G; Validated; Region: PRK08493 598659001652 DJ-1 family protein; Region: not_thiJ; TIGR01383 598659001653 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 598659001654 conserved cys residue [active] 598659001655 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 598659001656 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 598659001657 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 598659001658 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 598659001659 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 598659001660 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 598659001661 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 598659001662 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 598659001663 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 598659001664 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 598659001665 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 598659001666 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 598659001667 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 598659001668 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 598659001669 putative substrate-binding site; other site 598659001670 nickel binding site [ion binding]; other site 598659001671 HypF finger; Region: zf-HYPF; pfam07503 598659001672 Acylphosphatase; Region: Acylphosphatase; pfam00708 598659001673 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 598659001674 HypF finger; Region: zf-HYPF; pfam07503 598659001675 HypF finger; Region: zf-HYPF; pfam07503 598659001676 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 598659001677 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 598659001678 active site residue [active] 598659001679 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 598659001680 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 598659001681 putative switch regulator; other site 598659001682 non-specific DNA interactions [nucleotide binding]; other site 598659001683 DNA binding site [nucleotide binding] 598659001684 sequence specific DNA binding site [nucleotide binding]; other site 598659001685 putative cAMP binding site [chemical binding]; other site 598659001686 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 598659001687 EamA-like transporter family; Region: EamA; pfam00892 598659001688 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 598659001689 dimer interface [polypeptide binding]; other site 598659001690 conserved gate region; other site 598659001691 putative PBP binding loops; other site 598659001692 ABC-ATPase subunit interface; other site 598659001693 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 598659001694 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 598659001695 substrate binding pocket [chemical binding]; other site 598659001696 membrane-bound complex binding site; other site 598659001697 hinge residues; other site 598659001698 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 598659001699 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 598659001700 Walker A/P-loop; other site 598659001701 ATP binding site [chemical binding]; other site 598659001702 Q-loop/lid; other site 598659001703 ABC transporter signature motif; other site 598659001704 Walker B; other site 598659001705 D-loop; other site 598659001706 H-loop/switch region; other site 598659001707 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 598659001708 dimer interface [polypeptide binding]; other site 598659001709 conserved gate region; other site 598659001710 putative PBP binding loops; other site 598659001711 ABC-ATPase subunit interface; other site 598659001712 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 598659001713 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 598659001714 dimer interface [polypeptide binding]; other site 598659001715 conserved gate region; other site 598659001716 putative PBP binding loops; other site 598659001717 ABC-ATPase subunit interface; other site 598659001718 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 598659001719 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 598659001720 substrate binding pocket [chemical binding]; other site 598659001721 membrane-bound complex binding site; other site 598659001722 hinge residues; other site 598659001723 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 598659001724 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 598659001725 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 598659001726 Walker A/P-loop; other site 598659001727 ATP binding site [chemical binding]; other site 598659001728 Q-loop/lid; other site 598659001729 ABC transporter signature motif; other site 598659001730 Walker B; other site 598659001731 D-loop; other site 598659001732 H-loop/switch region; other site 598659001733 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 598659001734 HlyD family secretion protein; Region: HlyD_3; pfam13437 598659001735 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 598659001736 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 598659001737 metal binding site [ion binding]; metal-binding site 598659001738 dimer interface [polypeptide binding]; other site 598659001739 Methyltransferase domain; Region: Methyltransf_23; pfam13489 598659001740 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 598659001741 S-adenosylmethionine binding site [chemical binding]; other site 598659001742 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 598659001743 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 598659001744 metal binding site [ion binding]; metal-binding site 598659001745 dimer interface [polypeptide binding]; other site 598659001746 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 598659001747 Coenzyme A binding pocket [chemical binding]; other site 598659001748 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 598659001749 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 598659001750 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 598659001751 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 598659001752 Walker A/P-loop; other site 598659001753 ATP binding site [chemical binding]; other site 598659001754 Q-loop/lid; other site 598659001755 ABC transporter signature motif; other site 598659001756 Walker B; other site 598659001757 D-loop; other site 598659001758 H-loop/switch region; other site 598659001759 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 598659001760 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 598659001761 FtsX-like permease family; Region: FtsX; pfam02687 598659001762 DNA helicase, putative; Region: TIGR00376 598659001763 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 598659001764 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 598659001765 nucleotide binding pocket [chemical binding]; other site 598659001766 K-X-D-G motif; other site 598659001767 catalytic site [active] 598659001768 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 598659001769 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 598659001770 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 598659001771 Dimer interface [polypeptide binding]; other site 598659001772 BRCT sequence motif; other site 598659001773 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 598659001774 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 598659001775 Clp amino terminal domain; Region: Clp_N; pfam02861 598659001776 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 598659001777 Walker A motif; other site 598659001778 ATP binding site [chemical binding]; other site 598659001779 Walker B motif; other site 598659001780 arginine finger; other site 598659001781 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 598659001782 Walker A motif; other site 598659001783 ATP binding site [chemical binding]; other site 598659001784 Walker B motif; other site 598659001785 arginine finger; other site 598659001786 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 598659001787 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 598659001788 glucose-6-phosphate isomerase; Provisional; Region: PRK03868 598659001789 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 598659001790 active site 598659001791 dimer interface [polypeptide binding]; other site 598659001792 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 598659001793 dimer interface [polypeptide binding]; other site 598659001794 active site 598659001795 Predicted transcriptional regulator [Transcription]; Region: COG2932 598659001796 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 598659001797 Catalytic site [active] 598659001798 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 598659001799 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 598659001800 active site 598659001801 DNA binding site [nucleotide binding] 598659001802 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 598659001803 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 598659001804 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 598659001805 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 598659001806 Ubiquitin-like proteins; Region: UBQ; cl00155 598659001807 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 598659001808 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 598659001809 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 598659001810 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 598659001811 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 598659001812 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 598659001813 DNA binding residues [nucleotide binding] 598659001814 NAD synthetase; Provisional; Region: PRK13980 598659001815 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 598659001816 homodimer interface [polypeptide binding]; other site 598659001817 NAD binding pocket [chemical binding]; other site 598659001818 ATP binding pocket [chemical binding]; other site 598659001819 Mg binding site [ion binding]; other site 598659001820 active-site loop [active] 598659001821 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 598659001822 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 598659001823 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 598659001824 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 598659001825 active site 598659001826 DNA binding site [nucleotide binding] 598659001827 Int/Topo IB signature motif; other site 598659001828 pantothenate kinase; Reviewed; Region: PRK13333 598659001829 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 598659001830 Methyltransferase domain; Region: Methyltransf_23; pfam13489 598659001831 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 598659001832 S-adenosylmethionine binding site [chemical binding]; other site 598659001833 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 598659001834 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 598659001835 minor groove reading motif; other site 598659001836 helix-hairpin-helix signature motif; other site 598659001837 substrate binding pocket [chemical binding]; other site 598659001838 active site 598659001839 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 598659001840 hypothetical protein; Validated; Region: PRK00110 598659001841 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 598659001842 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 598659001843 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 598659001844 active site 598659001845 intersubunit interface [polypeptide binding]; other site 598659001846 zinc binding site [ion binding]; other site 598659001847 Na+ binding site [ion binding]; other site 598659001848 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 598659001849 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 598659001850 NADH dehydrogenase; Region: NADHdh; cl00469 598659001851 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 598659001852 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 598659001853 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 598659001854 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 598659001855 4Fe-4S binding domain; Region: Fer4; cl02805 598659001856 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 598659001857 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 598659001858 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 598659001859 NAD binding site [chemical binding]; other site 598659001860 Flagellin N-methylase; Region: FliB; pfam03692 598659001861 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 598659001862 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 598659001863 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 598659001864 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 598659001865 putative acyl-acceptor binding pocket; other site 598659001866 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 598659001867 Peptidase family M23; Region: Peptidase_M23; pfam01551 598659001868 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 598659001869 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 598659001870 putative active site [active] 598659001871 catalytic triad [active] 598659001872 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 598659001873 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 598659001874 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 598659001875 ATP binding site [chemical binding]; other site 598659001876 active site 598659001877 substrate binding site [chemical binding]; other site 598659001878 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 598659001879 C-terminal peptidase (prc); Region: prc; TIGR00225 598659001880 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 598659001881 protein binding site [polypeptide binding]; other site 598659001882 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 598659001883 Catalytic dyad [active] 598659001884 Clp amino terminal domain; Region: Clp_N; pfam02861 598659001885 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 598659001886 PAS fold; Region: PAS_3; pfam08447 598659001887 putative active site [active] 598659001888 heme pocket [chemical binding]; other site 598659001889 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 598659001890 dimer interface [polypeptide binding]; other site 598659001891 putative CheW interface [polypeptide binding]; other site 598659001892 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 598659001893 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 598659001894 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 598659001895 active site 598659001896 HIGH motif; other site 598659001897 nucleotide binding site [chemical binding]; other site 598659001898 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 598659001899 active site 598659001900 KMSKS motif; other site 598659001901 YGGT family; Region: YGGT; pfam02325 598659001902 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 598659001903 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 598659001904 N-acetyl-D-glucosamine binding site [chemical binding]; other site 598659001905 catalytic residue [active] 598659001906 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 598659001907 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 598659001908 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 598659001909 active site 598659001910 DNA gyrase subunit A; Validated; Region: PRK05560 598659001911 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 598659001912 CAP-like domain; other site 598659001913 active site 598659001914 primary dimer interface [polypeptide binding]; other site 598659001915 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 598659001916 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 598659001917 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 598659001918 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 598659001919 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 598659001920 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 598659001921 LPP20 lipoprotein; Region: LPP20; cl15824 598659001922 Response regulator receiver domain; Region: Response_reg; pfam00072 598659001923 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 598659001924 active site 598659001925 phosphorylation site [posttranslational modification] 598659001926 intermolecular recognition site; other site 598659001927 dimerization interface [polypeptide binding]; other site 598659001928 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 598659001929 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 598659001930 Walker A motif; other site 598659001931 ATP binding site [chemical binding]; other site 598659001932 Walker B motif; other site 598659001933 arginine finger; other site 598659001934 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 598659001935 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 598659001936 Uncharacterized protein family, UPF0114; Region: UPF0114; pfam03350 598659001937 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 598659001938 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 598659001939 FeS/SAM binding site; other site 598659001940 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 598659001941 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659001942 metal binding site [ion binding]; metal-binding site 598659001943 active site 598659001944 I-site; other site 598659001945 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 598659001946 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 598659001947 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 598659001948 active site 598659001949 dimer interface [polypeptide binding]; other site 598659001950 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 598659001951 Ligand Binding Site [chemical binding]; other site 598659001952 Molecular Tunnel; other site 598659001953 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 598659001954 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 598659001955 oligomer interface [polypeptide binding]; other site 598659001956 metal binding site [ion binding]; metal-binding site 598659001957 metal binding site [ion binding]; metal-binding site 598659001958 putative Cl binding site [ion binding]; other site 598659001959 aspartate ring; other site 598659001960 hydrophobic gate; other site 598659001961 periplasmic entrance; other site 598659001962 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 598659001963 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 598659001964 NAD(P) binding site [chemical binding]; other site 598659001965 active site 598659001966 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 598659001967 dimerization interface [polypeptide binding]; other site 598659001968 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 598659001969 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 598659001970 dimer interface [polypeptide binding]; other site 598659001971 putative CheW interface [polypeptide binding]; other site 598659001972 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 598659001973 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 598659001974 substrate binding site [chemical binding]; other site 598659001975 active site 598659001976 catalytic residues [active] 598659001977 heterodimer interface [polypeptide binding]; other site 598659001978 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 598659001979 active site 598659001980 oligomerization interface [polypeptide binding]; other site 598659001981 metal binding site [ion binding]; metal-binding site 598659001982 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 598659001983 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 598659001984 Walker A motif; other site 598659001985 ATP binding site [chemical binding]; other site 598659001986 Walker B motif; other site 598659001987 arginine finger; other site 598659001988 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 598659001989 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 598659001990 Domain of unknown function DUF20; Region: UPF0118; pfam01594 598659001991 heat-inducible transcription repressor; Provisional; Region: PRK03911 598659001992 GrpE; Region: GrpE; pfam01025 598659001993 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 598659001994 dimer interface [polypeptide binding]; other site 598659001995 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 598659001996 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 598659001997 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 598659001998 nucleotide binding site [chemical binding]; other site 598659001999 NEF interaction site [polypeptide binding]; other site 598659002000 SBD interface [polypeptide binding]; other site 598659002001 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 598659002002 Mechanosensitive ion channel; Region: MS_channel; pfam00924 598659002003 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 598659002004 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 598659002005 Cl- selectivity filter; other site 598659002006 Cl- binding residues [ion binding]; other site 598659002007 pore gating glutamate residue; other site 598659002008 dimer interface [polypeptide binding]; other site 598659002009 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 598659002010 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 598659002011 putative active site [active] 598659002012 dimerization interface [polypeptide binding]; other site 598659002013 putative tRNAtyr binding site [nucleotide binding]; other site 598659002014 Ferrochelatase; Region: Ferrochelatase; pfam00762 598659002015 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 598659002016 C-terminal domain interface [polypeptide binding]; other site 598659002017 active site 598659002018 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 598659002019 active site 598659002020 N-terminal domain interface [polypeptide binding]; other site 598659002021 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 598659002022 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 598659002023 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; cl00522 598659002024 Competence-damaged protein; Region: CinA; pfam02464 598659002025 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 598659002026 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 598659002027 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 598659002028 active site 598659002029 HIGH motif; other site 598659002030 nucleotide binding site [chemical binding]; other site 598659002031 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 598659002032 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 598659002033 active site 598659002034 KMSKS motif; other site 598659002035 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 598659002036 tRNA binding surface [nucleotide binding]; other site 598659002037 anticodon binding site; other site 598659002038 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 598659002039 indole-3-acetamide amidohydrolase; Region: PLN02722 598659002040 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 598659002041 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 598659002042 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 598659002043 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 598659002044 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 598659002045 active site 598659002046 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 598659002047 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 598659002048 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 598659002049 DctM-like transporters; Region: DctM; pfam06808 598659002050 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 598659002051 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 598659002052 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme MccE; Region: PLPDE_III_MccE_like; cd06841 598659002053 dimer interface [polypeptide binding]; other site 598659002054 active site 598659002055 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 598659002056 catalytic residues [active] 598659002057 substrate binding site [chemical binding]; other site 598659002058 Urea transporter; Region: UT; pfam03253 598659002059 Peptidase family M23; Region: Peptidase_M23; pfam01551 598659002060 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 598659002061 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 598659002062 binding surface 598659002063 TPR motif; other site 598659002064 Tetratricopeptide repeat; Region: TPR_16; pfam13432 598659002065 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 598659002066 binding surface 598659002067 TPR motif; other site 598659002068 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 598659002069 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 598659002070 DNA binding site [nucleotide binding] 598659002071 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 598659002072 FAD binding site [chemical binding]; other site 598659002073 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 598659002074 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 598659002075 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 598659002076 glutamine binding [chemical binding]; other site 598659002077 catalytic triad [active] 598659002078 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 598659002079 ATP citrate (pro-S)-lyase; Region: PLN02235 598659002080 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 598659002081 ATP citrate (pro-S)-lyase; Region: PLN02522 598659002082 CoA-ligase; Region: Ligase_CoA; pfam00549 598659002083 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 598659002084 active site 598659002085 oxalacetate binding site [chemical binding]; other site 598659002086 citrylCoA binding site [chemical binding]; other site 598659002087 coenzyme A binding site [chemical binding]; other site 598659002088 catalytic triad [active] 598659002089 Peptidase family M48; Region: Peptidase_M48; pfam01435 598659002090 short chain dehydrogenase; Provisional; Region: PRK06924 598659002091 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 598659002092 NAD(P) binding site [chemical binding]; other site 598659002093 active site 598659002094 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 598659002095 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 598659002096 S-adenosylmethionine binding site [chemical binding]; other site 598659002097 Major Facilitator Superfamily; Region: MFS_1; pfam07690 598659002098 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 598659002099 putative substrate translocation pore; other site 598659002100 MarC family integral membrane protein; Region: MarC; cl00919 598659002101 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 598659002102 MutS domain I; Region: MutS_I; pfam01624 598659002103 MutS domain II; Region: MutS_II; pfam05188 598659002104 MutS domain III; Region: MutS_III; pfam05192 598659002105 ATP-binding cassette domain of MutS homologs; Region: ABC_MutS_homologs; cd03243 598659002106 Walker A/P-loop; other site 598659002107 ATP binding site [chemical binding]; other site 598659002108 Q-loop/lid; other site 598659002109 ABC transporter signature motif; other site 598659002110 Walker B; other site 598659002111 D-loop; other site 598659002112 H-loop/switch region; other site 598659002113 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 598659002114 active site 598659002115 Metal binding protein HemV-2. 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: HemV-2; cd01147 598659002116 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 598659002117 putative metal binding site [ion binding]; other site 598659002118 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 598659002119 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 598659002120 ABC-ATPase subunit interface; other site 598659002121 dimer interface [polypeptide binding]; other site 598659002122 putative PBP binding regions; other site 598659002123 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 598659002124 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 598659002125 Walker A/P-loop; other site 598659002126 ATP binding site [chemical binding]; other site 598659002127 Q-loop/lid; other site 598659002128 ABC transporter signature motif; other site 598659002129 Walker B; other site 598659002130 D-loop; other site 598659002131 H-loop/switch region; other site 598659002132 Cobalt transport protein; Region: CbiQ; cl00463 598659002133 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 598659002134 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 598659002135 ATP binding site [chemical binding]; other site 598659002136 Walker A/P-loop; other site 598659002137 Q-loop/lid; other site 598659002138 ABC transporter signature motif; other site 598659002139 Walker B; other site 598659002140 D-loop; other site 598659002141 H-loop/switch region; other site 598659002142 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 598659002143 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 598659002144 HupF/HypC family; Region: HupF_HypC; pfam01455 598659002145 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 598659002146 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 598659002147 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 598659002148 dimerization interface [polypeptide binding]; other site 598659002149 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 598659002150 ATP binding site [chemical binding]; other site 598659002151 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 598659002152 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 598659002153 S-adenosylmethionine binding site [chemical binding]; other site 598659002154 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 598659002155 thiS-thiF/thiG interaction site; other site 598659002156 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 598659002157 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 598659002158 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 598659002159 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 598659002160 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 598659002161 ATP binding site [chemical binding]; other site 598659002162 Mg2+ binding site [ion binding]; other site 598659002163 G-X-G motif; other site 598659002164 Response regulator receiver domain; Region: Response_reg; pfam00072 598659002165 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 598659002166 active site 598659002167 phosphorylation site [posttranslational modification] 598659002168 intermolecular recognition site; other site 598659002169 dimerization interface [polypeptide binding]; other site 598659002170 PAS domain; Region: PAS_9; pfam13426 598659002171 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 598659002172 putative active site [active] 598659002173 heme pocket [chemical binding]; other site 598659002174 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 598659002175 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 598659002176 active site 598659002177 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 598659002178 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 598659002179 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 598659002180 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 598659002181 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 598659002182 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 598659002183 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 598659002184 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 598659002185 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 598659002186 Cytochrome c; Region: Cytochrom_C; pfam00034 598659002187 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14183 598659002188 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 598659002189 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 598659002190 homodimer interface [polypeptide binding]; other site 598659002191 NADP binding site [chemical binding]; other site 598659002192 substrate binding site [chemical binding]; other site 598659002193 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 598659002194 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 598659002195 Catalytic site [active] 598659002196 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 598659002197 Peptidase family M50; Region: Peptidase_M50; pfam02163 598659002198 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 598659002199 active site 598659002200 putative substrate binding region [chemical binding]; other site 598659002201 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 598659002202 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 598659002203 HSP70 interaction site [polypeptide binding]; other site 598659002204 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 598659002205 Zn binding sites [ion binding]; other site 598659002206 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 598659002207 dimer interface [polypeptide binding]; other site 598659002208 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 598659002209 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 598659002210 dimerization interface [polypeptide binding]; other site 598659002211 ATP binding site [chemical binding]; other site 598659002212 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 598659002213 dimerization interface [polypeptide binding]; other site 598659002214 ATP binding site [chemical binding]; other site 598659002215 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 598659002216 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 598659002217 dimerization interface [polypeptide binding]; other site 598659002218 potential frameshift: common BLAST hit: gi|157737300|ref|YP_001489983.1| putative integral membrane protein 598659002219 Predicted membrane protein [Function unknown]; Region: COG2855 598659002220 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 598659002221 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 598659002222 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 598659002223 Beta-Casp domain; Region: Beta-Casp; smart01027 598659002224 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 598659002225 phosphoenolpyruvate synthase; Validated; Region: PRK06464 598659002226 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 598659002227 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 598659002228 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 598659002229 Predicted membrane protein [Function unknown]; Region: COG3174 598659002230 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 598659002231 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 598659002232 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 598659002233 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 598659002234 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 598659002235 Soluble P-type ATPase [General function prediction only]; Region: COG4087 598659002236 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 598659002237 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 598659002238 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 598659002239 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 598659002240 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 598659002241 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 598659002242 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 598659002243 E3 interaction surface; other site 598659002244 lipoyl attachment site [posttranslational modification]; other site 598659002245 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 598659002246 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 598659002247 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 598659002248 alpha subunit interface [polypeptide binding]; other site 598659002249 TPP binding site [chemical binding]; other site 598659002250 heterodimer interface [polypeptide binding]; other site 598659002251 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 598659002252 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 598659002253 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 598659002254 tetramer interface [polypeptide binding]; other site 598659002255 TPP-binding site [chemical binding]; other site 598659002256 heterodimer interface [polypeptide binding]; other site 598659002257 phosphorylation loop region [posttranslational modification] 598659002258 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 598659002259 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 598659002260 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 598659002261 CoA binding domain; Region: CoA_binding_2; pfam13380 598659002262 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 598659002263 6-phosphofructokinase; Provisional; Region: PRK03202 598659002264 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 598659002265 active site 598659002266 ADP/pyrophosphate binding site [chemical binding]; other site 598659002267 dimerization interface [polypeptide binding]; other site 598659002268 allosteric effector site; other site 598659002269 fructose-1,6-bisphosphate binding site; other site 598659002270 lipoyl synthase; Provisional; Region: PRK05481 598659002271 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 598659002272 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 598659002273 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 598659002274 purine monophosphate binding site [chemical binding]; other site 598659002275 dimer interface [polypeptide binding]; other site 598659002276 putative catalytic residues [active] 598659002277 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 598659002278 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 598659002279 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 598659002280 Major Facilitator Superfamily; Region: MFS_1; pfam07690 598659002281 putative substrate translocation pore; other site 598659002282 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 598659002283 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 598659002284 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 598659002285 substrate binding pocket [chemical binding]; other site 598659002286 chain length determination region; other site 598659002287 substrate-Mg2+ binding site; other site 598659002288 catalytic residues [active] 598659002289 aspartate-rich region 1; other site 598659002290 active site lid residues [active] 598659002291 aspartate-rich region 2; other site 598659002292 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 598659002293 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 598659002294 P-loop; other site 598659002295 Magnesium ion binding site [ion binding]; other site 598659002296 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 598659002297 Magnesium ion binding site [ion binding]; other site 598659002298 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 598659002299 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 598659002300 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 598659002301 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 598659002302 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 598659002303 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 598659002304 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 598659002305 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 598659002306 Walker A/P-loop; other site 598659002307 ATP binding site [chemical binding]; other site 598659002308 Q-loop/lid; other site 598659002309 ABC transporter signature motif; other site 598659002310 Walker B; other site 598659002311 D-loop; other site 598659002312 H-loop/switch region; other site 598659002313 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 598659002314 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 598659002315 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 598659002316 metal-binding heat shock protein; Provisional; Region: PRK00016 598659002317 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 598659002318 Ligand Binding Site [chemical binding]; other site 598659002319 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 598659002320 feedback inhibition sensing region; other site 598659002321 homohexameric interface [polypeptide binding]; other site 598659002322 nucleotide binding site [chemical binding]; other site 598659002323 N-acetyl-L-glutamate binding site [chemical binding]; other site 598659002324 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 598659002325 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 598659002326 FliW protein; Region: FliW; cl00740 598659002327 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 598659002328 Part of AAA domain; Region: AAA_19; pfam13245 598659002329 Family description; Region: UvrD_C_2; pfam13538 598659002330 cation transport protein; Region: 2A0119; TIGR00898 598659002331 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 598659002332 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 598659002333 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 598659002334 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 598659002335 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 598659002336 gating phenylalanine in ion channel; other site 598659002337 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; cd00562 598659002338 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 598659002339 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 598659002340 DNA binding residues [nucleotide binding] 598659002341 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 598659002342 Walker A/P-loop; other site 598659002343 ATP binding site [chemical binding]; other site 598659002344 HNH endonuclease; Region: HNH; pfam01844 598659002345 NAD-dependent deacetylase; Provisional; Region: PRK00481 598659002346 SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2-fam; cd01407 598659002347 NAD+ binding site [chemical binding]; other site 598659002348 substrate binding site [chemical binding]; other site 598659002349 Zn binding site [ion binding]; other site 598659002350 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 598659002351 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 598659002352 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 598659002353 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 598659002354 putative catalytic cysteine [active] 598659002355 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 598659002356 exopolyphosphatase; Region: exo_poly_only; TIGR03706 598659002357 nucleotide binding site [chemical binding]; other site 598659002358 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08527 598659002359 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 598659002360 PYR/PP interface [polypeptide binding]; other site 598659002361 dimer interface [polypeptide binding]; other site 598659002362 TPP binding site [chemical binding]; other site 598659002363 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 598659002364 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 598659002365 TPP-binding site [chemical binding]; other site 598659002366 dimer interface [polypeptide binding]; other site 598659002367 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 598659002368 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 598659002369 putative valine binding site [chemical binding]; other site 598659002370 dimer interface [polypeptide binding]; other site 598659002371 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 598659002372 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 598659002373 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 598659002374 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 598659002375 trimer interface [polypeptide binding]; other site 598659002376 active site 598659002377 UDP-GlcNAc binding site [chemical binding]; other site 598659002378 lipid binding site [chemical binding]; lipid-binding site 598659002379 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 598659002380 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 598659002381 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 598659002382 catalytic residue [active] 598659002383 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 598659002384 trimerization site [polypeptide binding]; other site 598659002385 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 598659002386 active site 598659002387 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 598659002388 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 598659002389 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 598659002390 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 598659002391 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 598659002392 L-aspartate oxidase; Provisional; Region: PRK06175 598659002393 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 598659002394 FAD binding domain; Region: FAD_binding_4; pfam01565 598659002395 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 598659002396 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 598659002397 putative catalytic site [active] 598659002398 putative phosphate binding site [ion binding]; other site 598659002399 active site 598659002400 metal binding site A [ion binding]; metal-binding site 598659002401 DNA binding site [nucleotide binding] 598659002402 putative AP binding site [nucleotide binding]; other site 598659002403 putative metal binding site B [ion binding]; other site 598659002404 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 598659002405 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 598659002406 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659002407 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659002408 metal binding site [ion binding]; metal-binding site 598659002409 active site 598659002410 I-site; other site 598659002411 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 598659002412 aspartate aminotransferase; Provisional; Region: PRK05764 598659002413 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 598659002414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 598659002415 homodimer interface [polypeptide binding]; other site 598659002416 catalytic residue [active] 598659002417 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 598659002418 Nitrate and nitrite sensing; Region: NIT; pfam08376 598659002419 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 598659002420 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 598659002421 dimer interface [polypeptide binding]; other site 598659002422 putative CheW interface [polypeptide binding]; other site 598659002423 serine O-acetyltransferase; Region: cysE; TIGR01172 598659002424 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 598659002425 trimer interface [polypeptide binding]; other site 598659002426 active site 598659002427 substrate binding site [chemical binding]; other site 598659002428 CoA binding site [chemical binding]; other site 598659002429 thymidylate kinase; Validated; Region: tmk; PRK00698 598659002430 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 598659002431 TMP-binding site; other site 598659002432 ATP-binding site [chemical binding]; other site 598659002433 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 598659002434 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 598659002435 active site 598659002436 (T/H)XGH motif; other site 598659002437 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 598659002438 Flavoprotein; Region: Flavoprotein; pfam02441 598659002439 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 598659002440 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 598659002441 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 598659002442 Walker A motif; other site 598659002443 ATP binding site [chemical binding]; other site 598659002444 Walker B motif; other site 598659002445 arginine finger; other site 598659002446 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 598659002447 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 598659002448 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 598659002449 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 598659002450 active site 598659002451 HIGH motif; other site 598659002452 nucleotide binding site [chemical binding]; other site 598659002453 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 598659002454 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 598659002455 active site 598659002456 KMSKS motif; other site 598659002457 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 598659002458 tRNA binding surface [nucleotide binding]; other site 598659002459 anticodon binding site; other site 598659002460 FliW protein; Region: FliW; cl00740 598659002461 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 598659002462 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 598659002463 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 598659002464 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 598659002465 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 598659002466 30S subunit binding site; other site 598659002467 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 598659002468 Haemolytic domain; Region: Haemolytic; pfam01809 598659002469 membrane protein insertase; Provisional; Region: PRK01318 598659002470 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 598659002471 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 598659002472 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 598659002473 G-X-X-G motif; other site 598659002474 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 598659002475 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 598659002476 trmE is a tRNA modification GTPase; Region: trmE; cd04164 598659002477 G1 box; other site 598659002478 GTP/Mg2+ binding site [chemical binding]; other site 598659002479 Switch I region; other site 598659002480 G2 box; other site 598659002481 Switch II region; other site 598659002482 G3 box; other site 598659002483 G4 box; other site 598659002484 G5 box; other site 598659002485 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 598659002486 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 598659002487 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 598659002488 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 598659002489 putative ligand binding pocket/active site [active] 598659002490 putative metal binding site [ion binding]; other site 598659002491 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 598659002492 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 598659002493 FeS/SAM binding site; other site 598659002494 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 598659002495 active site 598659002496 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 598659002497 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 598659002498 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 598659002499 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 598659002500 RDD family; Region: RDD; pfam06271 598659002501 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 598659002502 Organic solvent tolerance protein; Region: OstA_C; pfam04453 598659002503 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 598659002504 mce related protein; Region: MCE; pfam02470 598659002505 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 598659002506 HSP70 interaction site [polypeptide binding]; other site 598659002507 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 598659002508 active site 598659002509 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 598659002510 oligomer interface [polypeptide binding]; other site 598659002511 RNA binding site [nucleotide binding]; other site 598659002512 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 598659002513 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 598659002514 RNA binding site [nucleotide binding]; other site 598659002515 hypothetical protein; Provisional; Region: PRK05839 598659002516 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 598659002517 pyridoxal 5'-phosphate binding site [chemical binding]; other site 598659002518 homodimer interface [polypeptide binding]; other site 598659002519 catalytic residue [active] 598659002520 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 598659002521 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 598659002522 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 598659002523 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 598659002524 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 598659002525 aspartate racemase; Region: asp_race; TIGR00035 598659002526 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 598659002527 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 598659002528 ssDNA binding site; other site 598659002529 generic binding surface II; other site 598659002530 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 598659002531 ATP binding site [chemical binding]; other site 598659002532 putative Mg++ binding site [ion binding]; other site 598659002533 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 598659002534 nucleotide binding region [chemical binding]; other site 598659002535 ATP-binding site [chemical binding]; other site 598659002536 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 598659002537 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 598659002538 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 598659002539 hypothetical protein; Provisional; Region: PRK05834 598659002540 MraW methylase family; Region: Methyltransf_5; cl17771 598659002541 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 598659002542 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 598659002543 Protein export membrane protein; Region: SecD_SecF; cl14618 598659002544 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 598659002545 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 598659002546 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 598659002547 FeS/SAM binding site; other site 598659002548 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 598659002549 Walker B motif; other site 598659002550 arginine finger; other site 598659002551 Peptidase family M41; Region: Peptidase_M41; pfam01434 598659002552 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 598659002553 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 598659002554 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 598659002555 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 598659002556 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 598659002557 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 598659002558 putative ATP binding site [chemical binding]; other site 598659002559 putative substrate interface [chemical binding]; other site 598659002560 YcaO-like family; Region: YcaO; pfam02624 598659002561 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 598659002562 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 598659002563 catalytic core [active] 598659002564 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 598659002565 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 598659002566 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 598659002567 histidinol dehydrogenase; Region: hisD; TIGR00069 598659002568 NAD binding site [chemical binding]; other site 598659002569 dimerization interface [polypeptide binding]; other site 598659002570 product binding site; other site 598659002571 substrate binding site [chemical binding]; other site 598659002572 zinc binding site [ion binding]; other site 598659002573 catalytic residues [active] 598659002574 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 598659002575 16S/18S rRNA binding site [nucleotide binding]; other site 598659002576 S13e-L30e interaction site [polypeptide binding]; other site 598659002577 25S rRNA binding site [nucleotide binding]; other site 598659002578 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 598659002579 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 598659002580 dimer interface [polypeptide binding]; other site 598659002581 phosphorylation site [posttranslational modification] 598659002582 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 598659002583 ATP binding site [chemical binding]; other site 598659002584 Mg2+ binding site [ion binding]; other site 598659002585 G-X-G motif; other site 598659002586 Rrf2 family protein; Region: rrf2_super; TIGR00738 598659002587 Transcriptional regulator; Region: Rrf2; pfam02082 598659002588 FHIPEP family; Region: FHIPEP; pfam00771 598659002589 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 598659002590 Methyltransferase domain; Region: Methyltransf_31; pfam13847 598659002591 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 598659002592 S-adenosylmethionine binding site [chemical binding]; other site 598659002593 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 598659002594 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 598659002595 homodimer interface [polypeptide binding]; other site 598659002596 substrate-cofactor binding pocket; other site 598659002597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 598659002598 catalytic residue [active] 598659002599 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659002600 metal binding site [ion binding]; metal-binding site 598659002601 active site 598659002602 I-site; other site 598659002603 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 598659002604 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 598659002605 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 598659002606 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 598659002607 Predicted amidohydrolase [General function prediction only]; Region: COG0388 598659002608 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 598659002609 active site 598659002610 catalytic triad [active] 598659002611 dimer interface [polypeptide binding]; other site 598659002612 hypothetical protein; Provisional; Region: PRK08445 598659002613 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 598659002614 FeS/SAM binding site; other site 598659002615 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659002616 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659002617 metal binding site [ion binding]; metal-binding site 598659002618 active site 598659002619 I-site; other site 598659002620 Colicin V production protein; Region: Colicin_V; pfam02674 598659002621 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 598659002622 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 598659002623 dimer interface [polypeptide binding]; other site 598659002624 putative anticodon binding site; other site 598659002625 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 598659002626 motif 1; other site 598659002627 active site 598659002628 motif 2; other site 598659002629 motif 3; other site 598659002630 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 598659002631 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 598659002632 dimer interface [polypeptide binding]; other site 598659002633 active site 598659002634 glycine-pyridoxal phosphate binding site [chemical binding]; other site 598659002635 folate binding site [chemical binding]; other site 598659002636 Domain of unknown function (DUF1882); Region: DUF1882; pfam08966 598659002637 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 598659002638 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 598659002639 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 598659002640 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 598659002641 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 598659002642 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 598659002643 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 598659002644 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 598659002645 shikimate binding site; other site 598659002646 NAD(P) binding site [chemical binding]; other site 598659002647 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 598659002648 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 598659002649 hinge; other site 598659002650 active site 598659002651 endonuclease IV; Provisional; Region: PRK01060 598659002652 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 598659002653 AP (apurinic/apyrimidinic) site pocket; other site 598659002654 DNA interaction; other site 598659002655 Metal-binding active site; metal-binding site 598659002656 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 598659002657 nucleotide binding site/active site [active] 598659002658 HIT family signature motif; other site 598659002659 catalytic residue [active] 598659002660 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 598659002661 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 598659002662 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 598659002663 dimer interface [polypeptide binding]; other site 598659002664 motif 1; other site 598659002665 active site 598659002666 motif 2; other site 598659002667 motif 3; other site 598659002668 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 598659002669 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 598659002670 putative tRNA-binding site [nucleotide binding]; other site 598659002671 tRNA synthetase B5 domain; Region: B5; pfam03484 598659002672 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 598659002673 dimer interface [polypeptide binding]; other site 598659002674 motif 1; other site 598659002675 motif 3; other site 598659002676 motif 2; other site 598659002677 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 598659002678 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 598659002679 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 598659002680 hinge; other site 598659002681 active site 598659002682 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 598659002683 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 598659002684 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 598659002685 RNA binding site [nucleotide binding]; other site 598659002686 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 598659002687 RNA binding site [nucleotide binding]; other site 598659002688 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 598659002689 RNA binding site [nucleotide binding]; other site 598659002690 S1 RNA binding domain; Region: S1; pfam00575 598659002691 RNA binding site [nucleotide binding]; other site 598659002692 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 598659002693 RNA binding site [nucleotide binding]; other site 598659002694 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 598659002695 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 598659002696 ligand binding site [chemical binding]; other site 598659002697 NAD binding site [chemical binding]; other site 598659002698 dimerization interface [polypeptide binding]; other site 598659002699 catalytic site [active] 598659002700 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 598659002701 putative L-serine binding site [chemical binding]; other site 598659002702 elongation factor P; Validated; Region: PRK00529 598659002703 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 598659002704 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 598659002705 RNA binding site [nucleotide binding]; other site 598659002706 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 598659002707 RNA binding site [nucleotide binding]; other site 598659002708 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 598659002709 active site 598659002710 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 598659002711 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 598659002712 pyridoxal 5'-phosphate binding site [chemical binding]; other site 598659002713 catalytic residue [active] 598659002714 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 598659002715 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 598659002716 multifunctional aminopeptidase A; Provisional; Region: PRK00913 598659002717 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 598659002718 interface (dimer of trimers) [polypeptide binding]; other site 598659002719 Substrate-binding/catalytic site; other site 598659002720 Zn-binding sites [ion binding]; other site 598659002721 GTP-binding protein YchF; Reviewed; Region: PRK09601 598659002722 YchF GTPase; Region: YchF; cd01900 598659002723 G1 box; other site 598659002724 GTP/Mg2+ binding site [chemical binding]; other site 598659002725 Switch I region; other site 598659002726 G2 box; other site 598659002727 Switch II region; other site 598659002728 G3 box; other site 598659002729 G4 box; other site 598659002730 G5 box; other site 598659002731 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 598659002732 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 598659002733 S1 domain; Region: S1_2; pfam13509 598659002734 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 598659002735 molybdopterin cofactor binding site; other site 598659002736 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 598659002737 hypothetical protein; Provisional; Region: PRK04233 598659002738 SEC-C motif; Region: SEC-C; pfam02810 598659002739 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 598659002740 phosphoglycolate phosphatase; Provisional; Region: PRK13222 598659002741 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 598659002742 motif II; other site 598659002743 recombination protein RecR; Reviewed; Region: recR; PRK00076 598659002744 RecR protein; Region: RecR; pfam02132 598659002745 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 598659002746 active site 598659002747 metal binding site [ion binding]; metal-binding site 598659002748 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 598659002749 SelR domain; Region: SelR; pfam01641 598659002750 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 598659002751 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 598659002752 ADP-ribose binding site [chemical binding]; other site 598659002753 Domain of unknown function DUF77; Region: DUF77; pfam01910 598659002754 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 598659002755 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 598659002756 Walker A/P-loop; other site 598659002757 ATP binding site [chemical binding]; other site 598659002758 Q-loop/lid; other site 598659002759 ABC transporter signature motif; other site 598659002760 Walker B; other site 598659002761 D-loop; other site 598659002762 H-loop/switch region; other site 598659002763 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 598659002764 Homeodomain-like domain; Region: HTH_23; cl17451 598659002765 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 598659002766 nucleotide binding site/active site [active] 598659002767 HIT family signature motif; other site 598659002768 catalytic residue [active] 598659002769 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 598659002770 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 598659002771 PhnA protein; Region: PhnA; pfam03831 598659002772 Protein of unknown function (DUF342); Region: DUF342; pfam03961 598659002773 Protein of unknown function DUF72; Region: DUF72; pfam01904 598659002774 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 598659002775 DctM-like transporters; Region: DctM; pfam06808 598659002776 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 598659002777 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 598659002778 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 598659002779 Acylphosphatase; Region: Acylphosphatase; pfam00708 598659002780 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 598659002781 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 598659002782 ATP-grasp domain; Region: ATP-grasp_4; cl17255 598659002783 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 598659002784 RuvA N terminal domain; Region: RuvA_N; pfam01330 598659002785 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 598659002786 Protein of unknown function (DUF342); Region: DUF342; pfam03961 598659002787 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 598659002788 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 598659002789 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 598659002790 active site 598659002791 HIGH motif; other site 598659002792 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 598659002793 KMSKS motif; other site 598659002794 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 598659002795 Protein of unknown function (DUF996); Region: DUF996; pfam06195 598659002796 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 598659002797 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 598659002798 quinone interaction residues [chemical binding]; other site 598659002799 active site 598659002800 catalytic residues [active] 598659002801 FMN binding site [chemical binding]; other site 598659002802 substrate binding site [chemical binding]; other site 598659002803 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 598659002804 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 598659002805 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 598659002806 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 598659002807 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 598659002808 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 598659002809 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 598659002810 salt bridge; other site 598659002811 non-specific DNA binding site [nucleotide binding]; other site 598659002812 sequence-specific DNA binding site [nucleotide binding]; other site 598659002813 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 598659002814 DNA methylase; Region: N6_N4_Mtase; pfam01555 598659002815 MjaI restriction endonuclease; Region: RE_MjaI; pfam09568 598659002816 Phospholipid methyltransferase; Region: PEMT; cl17370 598659002817 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 598659002818 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 598659002819 catalytic residue [active] 598659002820 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 598659002821 RIP metalloprotease RseP; Region: TIGR00054 598659002822 active site 598659002823 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 598659002824 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 598659002825 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 598659002826 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 598659002827 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 598659002828 putative NAD(P) binding site [chemical binding]; other site 598659002829 active site 598659002830 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 598659002831 dihydrodipicolinate synthase; Region: dapA; TIGR00674 598659002832 dimer interface [polypeptide binding]; other site 598659002833 active site 598659002834 catalytic residue [active] 598659002835 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 598659002836 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 598659002837 FtsX-like permease family; Region: FtsX; pfam02687 598659002838 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 598659002839 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 598659002840 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 598659002841 active site 598659002842 dimerization interface [polypeptide binding]; other site 598659002843 heat shock protein HtpX; Provisional; Region: PRK05457 598659002844 folate/biopterin transporter; Region: fbt; TIGR00788 598659002845 BT1 family; Region: BT1; pfam03092 598659002846 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 598659002847 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 598659002848 inhibitor-cofactor binding pocket; inhibition site 598659002849 pyridoxal 5'-phosphate binding site [chemical binding]; other site 598659002850 catalytic residue [active] 598659002851 SurA N-terminal domain; Region: SurA_N_3; cl07813 598659002852 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 598659002853 cell division protein FtsA; Region: ftsA; TIGR01174 598659002854 Cell division protein FtsA; Region: FtsA; smart00842 598659002855 Cell division protein FtsA; Region: FtsA; pfam14450 598659002856 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 598659002857 cell division protein FtsZ; Validated; Region: PRK09330 598659002858 nucleotide binding site [chemical binding]; other site 598659002859 SulA interaction site; other site 598659002860 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 598659002861 Permease; Region: Permease; pfam02405 598659002862 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 598659002863 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 598659002864 LPP20 lipoprotein; Region: LPP20; pfam02169 598659002865 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 598659002866 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 598659002867 substrate binding pocket [chemical binding]; other site 598659002868 membrane-bound complex binding site; other site 598659002869 hinge residues; other site 598659002870 PAS domain; Region: PAS_9; pfam13426 598659002871 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 598659002872 putative active site [active] 598659002873 heme pocket [chemical binding]; other site 598659002874 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 598659002875 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 598659002876 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 598659002877 active site 598659002878 GMP synthase; Reviewed; Region: guaA; PRK00074 598659002879 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 598659002880 AMP/PPi binding site [chemical binding]; other site 598659002881 candidate oxyanion hole; other site 598659002882 catalytic triad [active] 598659002883 potential glutamine specificity residues [chemical binding]; other site 598659002884 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 598659002885 ATP Binding subdomain [chemical binding]; other site 598659002886 Ligand Binding sites [chemical binding]; other site 598659002887 Dimerization subdomain; other site 598659002888 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 598659002889 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 598659002890 L-aspartate oxidase; Provisional; Region: PRK06175 598659002891 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 598659002892 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 598659002893 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 598659002894 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 598659002895 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 598659002896 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 598659002897 acyl-activating enzyme (AAE) consensus motif; other site 598659002898 AMP binding site [chemical binding]; other site 598659002899 active site 598659002900 CoA binding site [chemical binding]; other site 598659002901 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 598659002902 CoenzymeA binding site [chemical binding]; other site 598659002903 subunit interaction site [polypeptide binding]; other site 598659002904 PHB binding site; other site 598659002905 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 598659002906 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 598659002907 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 598659002908 dimer interface [polypeptide binding]; other site 598659002909 PYR/PP interface [polypeptide binding]; other site 598659002910 TPP binding site [chemical binding]; other site 598659002911 substrate binding site [chemical binding]; other site 598659002912 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 598659002913 TPP-binding site; other site 598659002914 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 598659002915 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 598659002916 Na binding site [ion binding]; other site 598659002917 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 598659002918 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 598659002919 GIY-YIG motif/motif A; other site 598659002920 active site 598659002921 catalytic site [active] 598659002922 putative DNA binding site [nucleotide binding]; other site 598659002923 metal binding site [ion binding]; metal-binding site 598659002924 UvrB/uvrC motif; Region: UVR; pfam02151 598659002925 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 598659002926 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 598659002927 substrate binding site [chemical binding]; other site 598659002928 SprA-related family; Region: SprA-related; pfam12118 598659002929 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 598659002930 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 598659002931 active site 598659002932 nucleotide binding site [chemical binding]; other site 598659002933 HIGH motif; other site 598659002934 KMSKS motif; other site 598659002935 Riboflavin kinase; Region: Flavokinase; cl03312 598659002936 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 598659002937 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 598659002938 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 598659002939 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 598659002940 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 598659002941 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 598659002942 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 598659002943 Walker A/P-loop; other site 598659002944 ATP binding site [chemical binding]; other site 598659002945 Q-loop/lid; other site 598659002946 ABC transporter signature motif; other site 598659002947 Walker B; other site 598659002948 D-loop; other site 598659002949 H-loop/switch region; other site 598659002950 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 598659002951 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 598659002952 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 598659002953 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 598659002954 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 598659002955 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 598659002956 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 598659002957 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 598659002958 dimer interface [polypeptide binding]; other site 598659002959 putative CheW interface [polypeptide binding]; other site 598659002960 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 598659002961 dimer interface [polypeptide binding]; other site 598659002962 substrate binding site [chemical binding]; other site 598659002963 metal binding sites [ion binding]; metal-binding site 598659002964 acetyl-CoA synthetase; Provisional; Region: PRK00174 598659002965 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 598659002966 active site 598659002967 CoA binding site [chemical binding]; other site 598659002968 acyl-activating enzyme (AAE) consensus motif; other site 598659002969 AMP binding site [chemical binding]; other site 598659002970 acetate binding site [chemical binding]; other site 598659002971 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 598659002972 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 598659002973 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 598659002974 ATP binding site [chemical binding]; other site 598659002975 Mg2+ binding site [ion binding]; other site 598659002976 G-X-G motif; other site 598659002977 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 598659002978 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 598659002979 active site 598659002980 phosphorylation site [posttranslational modification] 598659002981 intermolecular recognition site; other site 598659002982 dimerization interface [polypeptide binding]; other site 598659002983 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 598659002984 DNA binding site [nucleotide binding] 598659002985 Protein of unknown function, DUF485; Region: DUF485; pfam04341 598659002986 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 598659002987 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 598659002988 Na binding site [ion binding]; other site 598659002989 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 598659002990 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 598659002991 ligand binding site [chemical binding]; other site 598659002992 flexible hinge region; other site 598659002993 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 598659002994 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 598659002995 metal binding triad; other site 598659002996 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 598659002997 active site 598659002998 substrate binding site [chemical binding]; other site 598659002999 catalytic site [active] 598659003000 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 598659003001 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 598659003002 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 598659003003 active site 598659003004 catalytic residues [active] 598659003005 metal binding site [ion binding]; metal-binding site 598659003006 homodimer binding site [polypeptide binding]; other site 598659003007 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 598659003008 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 598659003009 carboxyltransferase (CT) interaction site; other site 598659003010 biotinylation site [posttranslational modification]; other site 598659003011 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 598659003012 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 598659003013 HD domain; Region: HD_3; pfam13023 598659003014 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 598659003015 argininosuccinate lyase; Provisional; Region: PRK00855 598659003016 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 598659003017 active sites [active] 598659003018 tetramer interface [polypeptide binding]; other site 598659003019 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 598659003020 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 598659003021 Sel1-like repeats; Region: SEL1; smart00671 598659003022 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 598659003023 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 598659003024 active site 598659003025 metal binding site [ion binding]; metal-binding site 598659003026 YfdX protein; Region: YfdX; pfam10938 598659003027 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 598659003028 hypothetical protein; Provisional; Region: PRK08960 598659003029 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 598659003030 pyridoxal 5'-phosphate binding site [chemical binding]; other site 598659003031 homodimer interface [polypeptide binding]; other site 598659003032 catalytic residue [active] 598659003033 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 598659003034 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 598659003035 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 598659003036 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 598659003037 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 598659003038 Walker A/P-loop; other site 598659003039 ATP binding site [chemical binding]; other site 598659003040 Q-loop/lid; other site 598659003041 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 598659003042 ABC transporter signature motif; other site 598659003043 Walker B; other site 598659003044 D-loop; other site 598659003045 H-loop/switch region; other site 598659003046 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 598659003047 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 598659003048 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 598659003049 Ferritin-like domain; Region: Ferritin; pfam00210 598659003050 heme binding site [chemical binding]; other site 598659003051 ferroxidase pore; other site 598659003052 ferroxidase diiron center [ion binding]; other site 598659003053 CHAD domain; Region: CHAD; pfam05235 598659003054 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 598659003055 Mechanosensitive ion channel; Region: MS_channel; pfam00924 598659003056 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 598659003057 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 598659003058 dimer interface [polypeptide binding]; other site 598659003059 anticodon binding site; other site 598659003060 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 598659003061 homodimer interface [polypeptide binding]; other site 598659003062 motif 1; other site 598659003063 active site 598659003064 motif 2; other site 598659003065 GAD domain; Region: GAD; pfam02938 598659003066 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 598659003067 active site 598659003068 motif 3; other site 598659003069 FeoA domain; Region: FeoA; pfam04023 598659003070 adenylate kinase; Reviewed; Region: adk; PRK00279 598659003071 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 598659003072 AMP-binding site [chemical binding]; other site 598659003073 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 598659003074 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 598659003075 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 598659003076 MPT binding site; other site 598659003077 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 598659003078 Response regulator receiver domain; Region: Response_reg; pfam00072 598659003079 active site 598659003080 phosphorylation site [posttranslational modification] 598659003081 intermolecular recognition site; other site 598659003082 dimerization interface [polypeptide binding]; other site 598659003083 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659003084 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659003085 metal binding site [ion binding]; metal-binding site 598659003086 active site 598659003087 I-site; other site 598659003088 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 598659003089 Cysteine-rich domain; Region: CCG; pfam02754 598659003090 Cysteine-rich domain; Region: CCG; pfam02754 598659003091 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 598659003092 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 598659003093 catalytic loop [active] 598659003094 iron binding site [ion binding]; other site 598659003095 L-aspartate oxidase; Provisional; Region: PRK06175 598659003096 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 598659003097 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 598659003098 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 598659003099 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 598659003100 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 598659003101 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 598659003102 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 598659003103 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 598659003104 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 598659003105 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 598659003106 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 598659003107 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 598659003108 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 598659003109 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 598659003110 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 598659003111 NADH dehydrogenase; Region: NADHdh; cl00469 598659003112 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 598659003113 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 598659003114 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 598659003115 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 598659003116 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 598659003117 dimerization interface [polypeptide binding]; other site 598659003118 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 598659003119 dimer interface [polypeptide binding]; other site 598659003120 putative CheW interface [polypeptide binding]; other site 598659003121 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 598659003122 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 598659003123 Coenzyme A binding pocket [chemical binding]; other site 598659003124 prolyl-tRNA synthetase; Provisional; Region: PRK09194 598659003125 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 598659003126 dimer interface [polypeptide binding]; other site 598659003127 motif 1; other site 598659003128 active site 598659003129 motif 2; other site 598659003130 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 598659003131 putative deacylase active site [active] 598659003132 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 598659003133 active site 598659003134 motif 3; other site 598659003135 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 598659003136 anticodon binding site; other site 598659003137 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 598659003138 RNA binding surface [nucleotide binding]; other site 598659003139 argininosuccinate synthase; Provisional; Region: PRK13820 598659003140 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 598659003141 ANP binding site [chemical binding]; other site 598659003142 Substrate Binding Site II [chemical binding]; other site 598659003143 Substrate Binding Site I [chemical binding]; other site 598659003144 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 598659003145 active site residue [active] 598659003146 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 598659003147 active site 598659003148 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 598659003149 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 598659003150 reverse gyrase; Reviewed; Region: PRK09401 598659003151 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 598659003152 ATP binding site [chemical binding]; other site 598659003153 putative Mg++ binding site [ion binding]; other site 598659003154 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 598659003155 active site 598659003156 metal binding site [ion binding]; metal-binding site 598659003157 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 598659003158 domain I; other site 598659003159 DNA binding groove [nucleotide binding] 598659003160 phosphate binding site [ion binding]; other site 598659003161 domain II; other site 598659003162 domain III; other site 598659003163 nucleotide binding site [chemical binding]; other site 598659003164 catalytic site [active] 598659003165 domain IV; other site 598659003166 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 598659003167 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 598659003168 Cl- selectivity filter; other site 598659003169 Cl- binding residues [ion binding]; other site 598659003170 pore gating glutamate residue; other site 598659003171 dimer interface [polypeptide binding]; other site 598659003172 hydroxylamine reductase; Provisional; Region: PRK12310 598659003173 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 598659003174 ACS interaction site; other site 598659003175 CODH interaction site; other site 598659003176 metal cluster binding site [ion binding]; other site 598659003177 Hemerythrin; Region: Hemerythrin; cd12107 598659003178 Fe binding site [ion binding]; other site 598659003179 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 598659003180 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 598659003181 ligand binding site [chemical binding]; other site 598659003182 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 598659003183 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 598659003184 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 598659003185 catalytic core [active] 598659003186 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 598659003187 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 598659003188 putative RNA binding site [nucleotide binding]; other site 598659003189 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 598659003190 S-adenosylmethionine binding site [chemical binding]; other site 598659003191 DNA helicase, putative; Region: TIGR00376 598659003192 Part of AAA domain; Region: AAA_19; pfam13245 598659003193 AAA domain; Region: AAA_12; pfam13087 598659003194 Competence protein; Region: Competence; cl00471 598659003195 replicative DNA helicase; Provisional; Region: PRK08506 598659003196 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 598659003197 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 598659003198 Walker A motif; other site 598659003199 ATP binding site [chemical binding]; other site 598659003200 Walker B motif; other site 598659003201 DNA binding loops [nucleotide binding] 598659003202 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 598659003203 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 598659003204 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 598659003205 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 598659003206 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 598659003207 RNA binding surface [nucleotide binding]; other site 598659003208 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 598659003209 S-adenosylmethionine binding site [chemical binding]; other site 598659003210 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 598659003211 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 598659003212 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 598659003213 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 598659003214 TrkA-N domain; Region: TrkA_N; pfam02254 598659003215 TrkA-C domain; Region: TrkA_C; pfam02080 598659003216 Ion transport protein; Region: Ion_trans; pfam00520 598659003217 Ion channel; Region: Ion_trans_2; pfam07885 598659003218 TrkA-N domain; Region: TrkA_N; pfam02254 598659003219 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 598659003220 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 598659003221 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 598659003222 GatB domain; Region: GatB_Yqey; smart00845 598659003223 CoA binding domain; Region: CoA_binding; cl17356 598659003224 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 598659003225 IHF - DNA interface [nucleotide binding]; other site 598659003226 IHF dimer interface [polypeptide binding]; other site 598659003227 FOG: WD40 repeat [General function prediction only]; Region: COG2319 598659003228 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 598659003229 structural tetrad; other site 598659003230 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 598659003231 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 598659003232 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 598659003233 TPP-binding site; other site 598659003234 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 598659003235 PYR/PP interface [polypeptide binding]; other site 598659003236 dimer interface [polypeptide binding]; other site 598659003237 TPP binding site [chemical binding]; other site 598659003238 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 598659003239 flagellar assembly protein H; Validated; Region: fliH; PRK06669 598659003240 Flagellar assembly protein FliH; Region: FliH; pfam02108 598659003241 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 598659003242 MgtE intracellular N domain; Region: MgtE_N; cl15244 598659003243 FliG C-terminal domain; Region: FliG_C; pfam01706 598659003244 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 598659003245 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 598659003246 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 598659003247 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 598659003248 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 598659003249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 598659003250 homodimer interface [polypeptide binding]; other site 598659003251 catalytic residue [active] 598659003252 Chorismate mutase [Amino acid transport and metabolism]; Region: PheA; COG1605 598659003253 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 598659003254 Prephenate dehydratase; Region: PDT; pfam00800 598659003255 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 598659003256 putative L-Phe binding site [chemical binding]; other site 598659003257 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 598659003258 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 598659003259 active site 598659003260 motif I; other site 598659003261 motif II; other site 598659003262 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 598659003263 diaminopimelate decarboxylase; Region: lysA; TIGR01048 598659003264 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 598659003265 active site 598659003266 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 598659003267 substrate binding site [chemical binding]; other site 598659003268 catalytic residues [active] 598659003269 dimer interface [polypeptide binding]; other site 598659003270 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 598659003271 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 598659003272 putative active site [active] 598659003273 catalytic residue [active] 598659003274 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 598659003275 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 598659003276 5S rRNA interface [nucleotide binding]; other site 598659003277 CTC domain interface [polypeptide binding]; other site 598659003278 L16 interface [polypeptide binding]; other site 598659003279 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 598659003280 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 598659003281 ATP binding site [chemical binding]; other site 598659003282 Walker B motif; other site 598659003283 Class I aldolases; Region: Aldolase_Class_I; cl17187 598659003284 transaldolase; Provisional; Region: PRK03903 598659003285 catalytic residue [active] 598659003286 phosphoserine phosphatase SerB; Region: serB; TIGR00338 598659003287 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 598659003288 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 598659003289 motif II; other site 598659003290 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 598659003291 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 598659003292 Protein of unknown function (DUF505); Region: DUF505; pfam04458 598659003293 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 598659003294 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659003295 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659003296 metal binding site [ion binding]; metal-binding site 598659003297 active site 598659003298 I-site; other site 598659003299 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 598659003300 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 598659003301 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 598659003302 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 598659003303 Permutation of conserved domain; other site 598659003304 active site 598659003305 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 598659003306 thiamine monophosphate kinase; Provisional; Region: PRK05731 598659003307 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 598659003308 ATP binding site [chemical binding]; other site 598659003309 dimerization interface [polypeptide binding]; other site 598659003310 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 598659003311 PAS fold; Region: PAS_3; pfam08447 598659003312 putative active site [active] 598659003313 heme pocket [chemical binding]; other site 598659003314 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 598659003315 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 598659003316 catalytic loop [active] 598659003317 iron binding site [ion binding]; other site 598659003318 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 598659003319 active site 598659003320 substrate binding site [chemical binding]; other site 598659003321 ATP binding site [chemical binding]; other site 598659003322 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 598659003323 Cysteine-rich domain; Region: CCG; pfam02754 598659003324 Cysteine-rich domain; Region: CCG; pfam02754 598659003325 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 598659003326 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 598659003327 catalytic loop [active] 598659003328 iron binding site [ion binding]; other site 598659003329 L-aspartate oxidase; Provisional; Region: PRK06175 598659003330 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 598659003331 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 598659003332 Outer membrane efflux protein; Region: OEP; pfam02321 598659003333 Outer membrane efflux protein; Region: OEP; pfam02321 598659003334 acetylornithine aminotransferase; Provisional; Region: PRK02627 598659003335 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 598659003336 inhibitor-cofactor binding pocket; inhibition site 598659003337 pyridoxal 5'-phosphate binding site [chemical binding]; other site 598659003338 catalytic residue [active] 598659003339 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 598659003340 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 598659003341 Sulfate transporter family; Region: Sulfate_transp; pfam00916 598659003342 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 598659003343 primosome assembly protein PriA; Validated; Region: PRK05580 598659003344 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 598659003345 ATP binding site [chemical binding]; other site 598659003346 putative Mg++ binding site [ion binding]; other site 598659003347 helicase superfamily c-terminal domain; Region: HELICc; smart00490 598659003348 ATP-binding site [chemical binding]; other site 598659003349 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 598659003350 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 598659003351 excinuclease ABC subunit B; Provisional; Region: PRK05298 598659003352 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 598659003353 ATP binding site [chemical binding]; other site 598659003354 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 598659003355 nucleotide binding region [chemical binding]; other site 598659003356 ATP-binding site [chemical binding]; other site 598659003357 Ultra-violet resistance protein B; Region: UvrB; pfam12344 598659003358 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 598659003359 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 598659003360 trimer interface [polypeptide binding]; other site 598659003361 putative metal binding site [ion binding]; other site 598659003362 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 598659003363 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 598659003364 Walker A/P-loop; other site 598659003365 ATP binding site [chemical binding]; other site 598659003366 Q-loop/lid; other site 598659003367 ABC transporter signature motif; other site 598659003368 Walker B; other site 598659003369 D-loop; other site 598659003370 H-loop/switch region; other site 598659003371 Smr domain; Region: Smr; pfam01713 598659003372 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 598659003373 active site 598659003374 thioredoxin 2; Provisional; Region: PRK10996 598659003375 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 598659003376 catalytic residues [active] 598659003377 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 598659003378 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 598659003379 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 598659003380 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 598659003381 Walker A motif; other site 598659003382 ATP binding site [chemical binding]; other site 598659003383 Walker B motif; other site 598659003384 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 598659003385 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 598659003386 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 598659003387 inhibitor-cofactor binding pocket; inhibition site 598659003388 pyridoxal 5'-phosphate binding site [chemical binding]; other site 598659003389 catalytic residue [active] 598659003390 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 598659003391 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 598659003392 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 598659003393 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 598659003394 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 598659003395 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 598659003396 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 598659003397 Walker A motif; other site 598659003398 ATP binding site [chemical binding]; other site 598659003399 Walker B motif; other site 598659003400 ketol-acid reductoisomerase; Provisional; Region: PRK05479 598659003401 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 598659003402 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 598659003403 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 598659003404 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 598659003405 Switch I; other site 598659003406 Switch II; other site 598659003407 Septum formation topological specificity factor MinE; Region: MinE; cl00538 598659003408 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 598659003409 NodB motif; other site 598659003410 putative active site [active] 598659003411 putative catalytic site [active] 598659003412 Zn binding site [ion binding]; other site 598659003413 DNA protecting protein DprA; Region: dprA; TIGR00732 598659003414 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 598659003415 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 598659003416 putative active site [active] 598659003417 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 598659003418 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659003419 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659003420 metal binding site [ion binding]; metal-binding site 598659003421 active site 598659003422 I-site; other site 598659003423 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 598659003424 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 598659003425 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 598659003426 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 598659003427 S-adenosylmethionine binding site [chemical binding]; other site 598659003428 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 598659003429 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 598659003430 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 598659003431 ligand binding site [chemical binding]; other site 598659003432 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 598659003433 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 598659003434 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 598659003435 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 598659003436 Substrate binding site; other site 598659003437 Mg++ binding site; other site 598659003438 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 598659003439 active site 598659003440 substrate binding site [chemical binding]; other site 598659003441 CoA binding site [chemical binding]; other site 598659003442 Flavoprotein; Region: Flavoprotein; pfam02441 598659003443 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 598659003444 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 598659003445 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; cl00230 598659003446 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 598659003447 catalytic residue [active] 598659003448 putative FPP diphosphate binding site; other site 598659003449 putative FPP binding hydrophobic cleft; other site 598659003450 dimer interface [polypeptide binding]; other site 598659003451 putative IPP diphosphate binding site; other site 598659003452 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 598659003453 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 598659003454 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 598659003455 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 598659003456 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 598659003457 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 598659003458 active site 598659003459 dimerization interface 3.5A [polypeptide binding]; other site 598659003460 Alginate lyase; Region: Alginate_lyase2; pfam08787 598659003461 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 598659003462 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 598659003463 active site 598659003464 catalytic residues [active] 598659003465 DNA binding site [nucleotide binding] 598659003466 Int/Topo IB signature motif; other site 598659003467 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 598659003468 Zonular occludens toxin (Zot); Region: Zot; cl17485 598659003469 phage assembly protein; Region: IV; PHA00019 598659003470 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 598659003471 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 598659003472 Cupin domain; Region: Cupin_2; pfam07883 598659003473 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 598659003474 binding surface 598659003475 TPR motif; other site 598659003476 DNA primase; Validated; Region: dnaG; PRK05667 598659003477 CHC2 zinc finger; Region: zf-CHC2; pfam01807 598659003478 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 598659003479 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 598659003480 active site 598659003481 metal binding site [ion binding]; metal-binding site 598659003482 interdomain interaction site; other site 598659003483 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 598659003484 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 598659003485 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 598659003486 Ligand Binding Site [chemical binding]; other site 598659003487 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 598659003488 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 598659003489 substrate binding pocket [chemical binding]; other site 598659003490 membrane-bound complex binding site; other site 598659003491 hinge residues; other site 598659003492 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 598659003493 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 598659003494 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 598659003495 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 598659003496 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 598659003497 Coenzyme A binding pocket [chemical binding]; other site 598659003498 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 598659003499 G1 box; other site 598659003500 GTP/Mg2+ binding site [chemical binding]; other site 598659003501 Switch I region; other site 598659003502 G2 box; other site 598659003503 G3 box; other site 598659003504 Switch II region; other site 598659003505 G4 box; other site 598659003506 G5 box; other site 598659003507 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 598659003508 OstA-like protein; Region: OstA; pfam03968 598659003509 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 598659003510 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 598659003511 active site 598659003512 motif I; other site 598659003513 motif II; other site 598659003514 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 598659003515 putative active site pocket [active] 598659003516 4-fold oligomerization interface [polypeptide binding]; other site 598659003517 metal binding residues [ion binding]; metal-binding site 598659003518 3-fold/trimer interface [polypeptide binding]; other site 598659003519 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 598659003520 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 598659003521 Sporulation related domain; Region: SPOR; pfam05036 598659003522 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 598659003523 N-acetyl-D-glucosamine binding site [chemical binding]; other site 598659003524 catalytic residue [active] 598659003525 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 598659003526 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 598659003527 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 598659003528 active site 598659003529 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 598659003530 Malic enzyme, N-terminal domain; Region: malic; pfam00390 598659003531 Malic enzyme, NAD binding domain; Region: Malic_M; smart00919 598659003532 NAD(P) binding pocket [chemical binding]; other site 598659003533 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 598659003534 MPT binding site; other site 598659003535 trimer interface [polypeptide binding]; other site 598659003536 Protein of unknown function (DUF972); Region: DUF972; pfam06156 598659003537 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 598659003538 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 598659003539 active site 598659003540 hydrophilic channel; other site 598659003541 dimerization interface [polypeptide binding]; other site 598659003542 catalytic residues [active] 598659003543 active site lid [active] 598659003544 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 598659003545 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 598659003546 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 598659003547 ATP binding site [chemical binding]; other site 598659003548 substrate interface [chemical binding]; other site 598659003549 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 598659003550 dihydropteroate synthase; Region: DHPS; TIGR01496 598659003551 substrate binding pocket [chemical binding]; other site 598659003552 dimer interface [polypeptide binding]; other site 598659003553 inhibitor binding site; inhibition site 598659003554 DNA polymerase III subunit delta'; Validated; Region: PRK08485 598659003555 DNA replication regulator; Region: HobA; pfam12163 598659003556 aspartate kinase; Reviewed; Region: PRK06635 598659003557 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 598659003558 putative nucleotide binding site [chemical binding]; other site 598659003559 putative catalytic residues [active] 598659003560 putative Mg ion binding site [ion binding]; other site 598659003561 putative aspartate binding site [chemical binding]; other site 598659003562 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 598659003563 putative allosteric regulatory site; other site 598659003564 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 598659003565 putative allosteric regulatory residue; other site 598659003566 RNA pyrophosphohydrolase; Reviewed; Region: PRK00714 598659003567 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 598659003568 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 598659003569 FeS/SAM binding site; other site 598659003570 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 598659003571 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 598659003572 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 598659003573 active site 598659003574 ribulose/triose binding site [chemical binding]; other site 598659003575 phosphate binding site [ion binding]; other site 598659003576 substrate (anthranilate) binding pocket [chemical binding]; other site 598659003577 product (indole) binding pocket [chemical binding]; other site 598659003578 Tetratricopeptide repeat; Region: TPR_16; pfam13432 598659003579 Flagellin N-methylase; Region: FliB; pfam03692 598659003580 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 598659003581 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 598659003582 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 598659003583 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 598659003584 Ligand binding site; other site 598659003585 oligomer interface; other site 598659003586 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK03946 598659003587 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 598659003588 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 598659003589 dinuclear metal binding motif [ion binding]; other site 598659003590 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 598659003591 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 598659003592 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 598659003593 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 598659003594 TPP-binding site [chemical binding]; other site 598659003595 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 598659003596 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 598659003597 dimer interface [polypeptide binding]; other site 598659003598 PYR/PP interface [polypeptide binding]; other site 598659003599 TPP binding site [chemical binding]; other site 598659003600 substrate binding site [chemical binding]; other site 598659003601 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 598659003602 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 598659003603 Ferredoxin [Energy production and conversion]; Region: COG1146 598659003604 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 598659003605 CoA binding domain; Region: CoA_binding; smart00881 598659003606 CoA-ligase; Region: Ligase_CoA; pfam00549 598659003607 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 598659003608 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 598659003609 CoA-ligase; Region: Ligase_CoA; pfam00549 598659003610 Fumarase C-terminus; Region: Fumerase_C; cl00795 598659003611 fumarate hydratase; Provisional; Region: PRK06246 598659003612 malate dehydrogenase; Reviewed; Region: PRK06223 598659003613 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 598659003614 NAD(P) binding site [chemical binding]; other site 598659003615 dimer interface [polypeptide binding]; other site 598659003616 tetramer (dimer of dimers) interface [polypeptide binding]; other site 598659003617 substrate binding site [chemical binding]; other site 598659003618 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 598659003619 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 598659003620 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 598659003621 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 598659003622 dimerization interface [polypeptide binding]; other site 598659003623 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 598659003624 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 598659003625 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 598659003626 DNA binding residues [nucleotide binding] 598659003627 chaperone protein DnaJ; Provisional; Region: PRK14299 598659003628 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 598659003629 HSP70 interaction site [polypeptide binding]; other site 598659003630 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 598659003631 substrate binding site [polypeptide binding]; other site 598659003632 dimer interface [polypeptide binding]; other site 598659003633 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 598659003634 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 598659003635 active site 598659003636 substrate binding site [chemical binding]; other site 598659003637 metal binding site [ion binding]; metal-binding site 598659003638 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 598659003639 dimer interface [polypeptide binding]; other site 598659003640 ADP-ribose binding site [chemical binding]; other site 598659003641 active site 598659003642 nudix motif; other site 598659003643 metal binding site [ion binding]; metal-binding site 598659003644 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 598659003645 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 598659003646 active site 598659003647 HIGH motif; other site 598659003648 KMSKS motif; other site 598659003649 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 598659003650 anticodon binding site; other site 598659003651 tRNA binding surface [nucleotide binding]; other site 598659003652 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human...; Region: tRNA_bindingDomain; cl00320 598659003653 putative tRNA-binding site [nucleotide binding]; other site 598659003654 fructose-1,6-bisphosphatase; Provisional; Region: PRK09293 598659003655 active site 598659003656 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 598659003657 Walker A motif; other site 598659003658 Predicted membrane protein [Function unknown]; Region: COG3174 598659003659 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 598659003660 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 598659003661 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 598659003662 substrate binding site [chemical binding]; other site 598659003663 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 598659003664 tartrate dehydrogenase; Region: TTC; TIGR02089 598659003665 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 598659003666 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 598659003667 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 598659003668 active site 598659003669 NTP binding site [chemical binding]; other site 598659003670 metal binding triad [ion binding]; metal-binding site 598659003671 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 598659003672 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 598659003673 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 598659003674 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 598659003675 putative active site [active] 598659003676 putative substrate binding site [chemical binding]; other site 598659003677 putative cosubstrate binding site; other site 598659003678 catalytic site [active] 598659003679 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 598659003680 hypothetical protein; Provisional; Region: PRK10410 598659003681 DNA polymerase III subunit delta; Validated; Region: PRK08487 598659003682 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 598659003683 Exoribonuclease R [Transcription]; Region: VacB; COG0557 598659003684 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 598659003685 RNB domain; Region: RNB; pfam00773 598659003686 HDOD domain; Region: HDOD; pfam08668 598659003687 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 598659003688 AAA domain; Region: AAA_22; pfam13401 598659003689 Walker A motif; other site 598659003690 ATP binding site [chemical binding]; other site 598659003691 Walker B motif; other site 598659003692 arginine finger; other site 598659003693 Secretin and TonB N terminus short domain; Region: STN; pfam07660 598659003694 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 598659003695 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 598659003696 GTPase Era; Reviewed; Region: era; PRK00089 598659003697 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 598659003698 G1 box; other site 598659003699 GTP/Mg2+ binding site [chemical binding]; other site 598659003700 Switch I region; other site 598659003701 G2 box; other site 598659003702 Switch II region; other site 598659003703 G3 box; other site 598659003704 G4 box; other site 598659003705 G5 box; other site 598659003706 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 598659003707 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 598659003708 Walker A motif; other site 598659003709 ATP binding site [chemical binding]; other site 598659003710 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 598659003711 Walker B motif; other site 598659003712 arginine finger; other site 598659003713 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 598659003714 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 598659003715 active site 598659003716 HslU subunit interaction site [polypeptide binding]; other site 598659003717 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 598659003718 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 598659003719 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 598659003720 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 598659003721 PAS domain; Region: PAS_9; pfam13426 598659003722 putative active site [active] 598659003723 heme pocket [chemical binding]; other site 598659003724 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 598659003725 Sel1-like repeats; Region: SEL1; smart00671 598659003726 Nitrate and nitrite sensing; Region: NIT; pfam08376 598659003727 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 598659003728 dimer interface [polypeptide binding]; other site 598659003729 phosphorylation site [posttranslational modification] 598659003730 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 598659003731 ATP binding site [chemical binding]; other site 598659003732 Mg2+ binding site [ion binding]; other site 598659003733 G-X-G motif; other site 598659003734 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 598659003735 Response regulator receiver domain; Region: Response_reg; pfam00072 598659003736 active site 598659003737 phosphorylation site [posttranslational modification] 598659003738 intermolecular recognition site; other site 598659003739 dimerization interface [polypeptide binding]; other site 598659003740 Response regulator receiver domain; Region: Response_reg; pfam00072 598659003741 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 598659003742 active site 598659003743 phosphorylation site [posttranslational modification] 598659003744 intermolecular recognition site; other site 598659003745 dimerization interface [polypeptide binding]; other site 598659003746 hypothetical protein; Provisional; Region: PRK08444 598659003747 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 598659003748 FeS/SAM binding site; other site 598659003749 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 598659003750 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 598659003751 metal binding triad; other site 598659003752 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 598659003753 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 598659003754 Zn2+ binding site [ion binding]; other site 598659003755 Mg2+ binding site [ion binding]; other site 598659003756 ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; Region: ACT_UUR-ACR-like; cd04873 598659003757 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659003758 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659003759 metal binding site [ion binding]; metal-binding site 598659003760 active site 598659003761 I-site; other site 598659003762 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 598659003763 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 598659003764 active site 598659003765 catalytic site [active] 598659003766 substrate binding site [chemical binding]; other site 598659003767 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 598659003768 Cytochrome c; Region: Cytochrom_C; cl11414 598659003769 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 598659003770 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 598659003771 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 598659003772 protoporphyrinogen oxidase; Region: proto_IX_ox; TIGR00562 598659003773 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 598659003774 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 598659003775 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 598659003776 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 598659003777 Cysteine-rich domain; Region: CCG; pfam02754 598659003778 Cysteine-rich domain; Region: CCG; pfam02754 598659003779 Selenophosphate synthase [Amino acid transport and metabolism]; Region: SelD; COG0709 598659003780 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 598659003781 dimerization interface [polypeptide binding]; other site 598659003782 putative ATP binding site [chemical binding]; other site 598659003783 DsrE/DsrF-like family; Region: DrsE; pfam02635 598659003784 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 598659003785 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 598659003786 metal-binding site [ion binding] 598659003787 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 598659003788 CPxP motif; other site 598659003789 MerT mercuric transport protein; Region: MerT; cl03578 598659003790 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 598659003791 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 598659003792 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 598659003793 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 598659003794 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 598659003795 CPxP motif; other site 598659003796 DsrE/DsrF-like family; Region: DrsE; pfam02635 598659003797 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 598659003798 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 598659003799 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 598659003800 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 598659003801 dimer interface [polypeptide binding]; other site 598659003802 putative functional site; other site 598659003803 putative MPT binding site; other site 598659003804 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 598659003805 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 598659003806 substrate binding pocket [chemical binding]; other site 598659003807 membrane-bound complex binding site; other site 598659003808 hinge residues; other site 598659003809 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659003810 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659003811 metal binding site [ion binding]; metal-binding site 598659003812 active site 598659003813 I-site; other site 598659003814 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 598659003815 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 598659003816 substrate binding pocket [chemical binding]; other site 598659003817 membrane-bound complex binding site; other site 598659003818 hinge residues; other site 598659003819 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659003820 metal binding site [ion binding]; metal-binding site 598659003821 active site 598659003822 I-site; other site 598659003823 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 598659003824 Response regulator receiver domain; Region: Response_reg; pfam00072 598659003825 active site 598659003826 phosphorylation site [posttranslational modification] 598659003827 intermolecular recognition site; other site 598659003828 dimerization interface [polypeptide binding]; other site 598659003829 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 598659003830 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 598659003831 dimer interface [polypeptide binding]; other site 598659003832 phosphorylation site [posttranslational modification] 598659003833 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 598659003834 ATP binding site [chemical binding]; other site 598659003835 Mg2+ binding site [ion binding]; other site 598659003836 G-X-G motif; other site 598659003837 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 598659003838 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 598659003839 putative ligand binding site [chemical binding]; other site 598659003840 4Fe-4S binding domain; Region: Fer4; cl02805 598659003841 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 598659003842 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 598659003843 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 598659003844 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 598659003845 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 598659003846 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 598659003847 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 598659003848 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 598659003849 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 598659003850 molybdopterin cofactor binding site; other site 598659003851 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 598659003852 4Fe-4S binding domain; Region: Fer4; cl02805 598659003853 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 598659003854 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 598659003855 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 598659003856 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 598659003857 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 598659003858 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 598659003859 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 598659003860 Walker A/P-loop; other site 598659003861 ATP binding site [chemical binding]; other site 598659003862 Q-loop/lid; other site 598659003863 ABC transporter signature motif; other site 598659003864 Walker B; other site 598659003865 D-loop; other site 598659003866 H-loop/switch region; other site 598659003867 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 598659003868 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 598659003869 dimer interface [polypeptide binding]; other site 598659003870 conserved gate region; other site 598659003871 putative PBP binding loops; other site 598659003872 ABC-ATPase subunit interface; other site 598659003873 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 598659003874 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 598659003875 active site residue [active] 598659003876 Protein of unknown function, DUF258; Region: DUF258; pfam03193 598659003877 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 598659003878 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 598659003879 molybdopterin cofactor binding site; other site 598659003880 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 598659003881 molybdopterin cofactor binding site; other site 598659003882 short chain dehydrogenase; Provisional; Region: PRK06101 598659003883 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 598659003884 NAD(P) binding site [chemical binding]; other site 598659003885 active site 598659003886 Uncharacterized conserved protein [Function unknown]; Region: COG1434 598659003887 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 598659003888 putative active site [active] 598659003889 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659003890 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659003891 metal binding site [ion binding]; metal-binding site 598659003892 active site 598659003893 I-site; other site 598659003894 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 598659003895 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 598659003896 Membrane transport protein; Region: Mem_trans; cl09117 598659003897 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 598659003898 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 598659003899 pyridoxal 5'-phosphate binding site [chemical binding]; other site 598659003900 catalytic residue [active] 598659003901 YfdX protein; Region: YfdX; pfam10938 598659003902 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 598659003903 selenocysteine synthase; Provisional; Region: PRK04311 598659003904 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 598659003905 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 598659003906 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 598659003907 G1 box; other site 598659003908 putative GEF interaction site [polypeptide binding]; other site 598659003909 GTP/Mg2+ binding site [chemical binding]; other site 598659003910 Switch I region; other site 598659003911 G2 box; other site 598659003912 G3 box; other site 598659003913 Switch II region; other site 598659003914 G4 box; other site 598659003915 G5 box; other site 598659003916 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 598659003917 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 598659003918 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 598659003919 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 598659003920 Predicted methyltransferases [General function prediction only]; Region: COG0313 598659003921 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 598659003922 putative SAM binding site [chemical binding]; other site 598659003923 putative homodimer interface [polypeptide binding]; other site 598659003924 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 598659003925 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 598659003926 pyridoxal 5'-phosphate binding site [chemical binding]; other site 598659003927 catalytic residue [active] 598659003928 GTP-binding protein LepA; Provisional; Region: PRK05433 598659003929 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 598659003930 G1 box; other site 598659003931 putative GEF interaction site [polypeptide binding]; other site 598659003932 GTP/Mg2+ binding site [chemical binding]; other site 598659003933 Switch I region; other site 598659003934 G2 box; other site 598659003935 G3 box; other site 598659003936 Switch II region; other site 598659003937 G4 box; other site 598659003938 G5 box; other site 598659003939 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 598659003940 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 598659003941 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 598659003942 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 598659003943 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 598659003944 active site 598659003945 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 598659003946 generic binding surface II; other site 598659003947 generic binding surface I; other site 598659003948 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 598659003949 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 598659003950 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 598659003951 PAS domain; Region: PAS_9; pfam13426 598659003952 putative active site [active] 598659003953 heme pocket [chemical binding]; other site 598659003954 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659003955 metal binding site [ion binding]; metal-binding site 598659003956 active site 598659003957 I-site; other site 598659003958 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 598659003959 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 598659003960 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 598659003961 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 598659003962 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 598659003963 active site 598659003964 dimer interface [polypeptide binding]; other site 598659003965 motif 1; other site 598659003966 motif 2; other site 598659003967 motif 3; other site 598659003968 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 598659003969 anticodon binding site; other site 598659003970 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 598659003971 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 598659003972 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 598659003973 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 598659003974 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659003975 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659003976 metal binding site [ion binding]; metal-binding site 598659003977 active site 598659003978 I-site; other site 598659003979 flagellar motor switch protein FliY; Validated; Region: PRK08432 598659003980 flagellar motor switch protein FliN; Region: fliN; TIGR02480 598659003981 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 598659003982 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 598659003983 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 598659003984 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 598659003985 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 598659003986 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 598659003987 DNA binding residues [nucleotide binding] 598659003988 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 598659003989 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 598659003990 P-loop; other site 598659003991 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 598659003992 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 598659003993 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 598659003994 catalytic center binding site [active] 598659003995 ATP binding site [chemical binding]; other site 598659003996 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 598659003997 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 598659003998 active site 598659003999 Dehydroquinase class II; Region: DHquinase_II; pfam01220 598659004000 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 598659004001 trimer interface [polypeptide binding]; other site 598659004002 active site 598659004003 dimer interface [polypeptide binding]; other site 598659004004 chlorohydrolase; Provisional; Region: PRK08418 598659004005 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 598659004006 active site 598659004007 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 598659004008 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 598659004009 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 598659004010 ligand binding site [chemical binding]; other site 598659004011 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 598659004012 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 598659004013 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 598659004014 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08412 598659004015 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 598659004016 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 598659004017 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 598659004018 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 598659004019 generic binding surface II; other site 598659004020 generic binding surface I; other site 598659004021 alanine racemase; Reviewed; Region: alr; PRK00053 598659004022 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 598659004023 active site 598659004024 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 598659004025 dimer interface [polypeptide binding]; other site 598659004026 substrate binding site [chemical binding]; other site 598659004027 catalytic residues [active] 598659004028 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 598659004029 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 598659004030 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 598659004031 dimer interface [polypeptide binding]; other site 598659004032 ssDNA binding site [nucleotide binding]; other site 598659004033 tetramer (dimer of dimers) interface [polypeptide binding]; other site 598659004034 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 598659004035 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 598659004036 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 598659004037 acyl-activating enzyme (AAE) consensus motif; other site 598659004038 putative AMP binding site [chemical binding]; other site 598659004039 putative active site [active] 598659004040 putative CoA binding site [chemical binding]; other site 598659004041 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 598659004042 dimer interface [polypeptide binding]; other site 598659004043 phosphorylation site [posttranslational modification] 598659004044 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 598659004045 ATP binding site [chemical binding]; other site 598659004046 Mg2+ binding site [ion binding]; other site 598659004047 G-X-G motif; other site 598659004048 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 598659004049 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 598659004050 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 598659004051 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 598659004052 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 598659004053 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 598659004054 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 598659004055 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 598659004056 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 598659004057 Walker A motif; other site 598659004058 ATP binding site [chemical binding]; other site 598659004059 Walker B motif; other site 598659004060 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 598659004061 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 598659004062 binding surface 598659004063 TPR motif; other site 598659004064 AAA domain; Region: AAA_22; pfam13401 598659004065 AAA domain; Region: AAA_14; pfam13173 598659004066 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 598659004067 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 598659004068 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 598659004069 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 598659004070 peptide chain release factor 2; Validated; Region: prfB; PRK00578 598659004071 This domain is found in peptide chain release factors; Region: PCRF; smart00937 598659004072 RF-1 domain; Region: RF-1; pfam00472 598659004073 pantoate--beta-alanine ligase; Region: panC; TIGR00018 598659004074 Pantoate-beta-alanine ligase; Region: PanC; cd00560 598659004075 active site 598659004076 ATP-binding site [chemical binding]; other site 598659004077 pantoate-binding site; other site 598659004078 HXXH motif; other site 598659004079 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 598659004080 H-type lectin domain; Region: H_lectin; pfam09458 598659004081 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 598659004082 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 598659004083 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 598659004084 FeS/SAM binding site; other site 598659004085 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 598659004086 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 598659004087 Ligand Binding Site [chemical binding]; other site 598659004088 Soluble P-type ATPase [General function prediction only]; Region: COG4087 598659004089 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 598659004090 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 598659004091 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 598659004092 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 598659004093 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 598659004094 active site 598659004095 substrate binding site [chemical binding]; other site 598659004096 metal binding site [ion binding]; metal-binding site 598659004097 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 598659004098 peptide chain release factor 1; Validated; Region: prfA; PRK00591 598659004099 This domain is found in peptide chain release factors; Region: PCRF; smart00937 598659004100 RF-1 domain; Region: RF-1; pfam00472 598659004101 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; cd02883 598659004102 nudix motif; other site 598659004103 Nitrate and nitrite sensing; Region: NIT; pfam08376 598659004104 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 598659004105 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 598659004106 dimer interface [polypeptide binding]; other site 598659004107 putative CheW interface [polypeptide binding]; other site 598659004108 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 598659004109 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 598659004110 catalytic triad [active] 598659004111 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 598659004112 SmpB-tmRNA interface; other site 598659004113 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 598659004114 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 598659004115 nucleotide binding site [chemical binding]; other site 598659004116 homotetrameric interface [polypeptide binding]; other site 598659004117 putative phosphate binding site [ion binding]; other site 598659004118 putative allosteric binding site; other site 598659004119 GTPase CgtA; Reviewed; Region: obgE; PRK12299 598659004120 GTP1/OBG; Region: GTP1_OBG; pfam01018 598659004121 Obg GTPase; Region: Obg; cd01898 598659004122 G1 box; other site 598659004123 GTP/Mg2+ binding site [chemical binding]; other site 598659004124 Switch I region; other site 598659004125 G2 box; other site 598659004126 G3 box; other site 598659004127 Switch II region; other site 598659004128 G4 box; other site 598659004129 G5 box; other site 598659004130 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 598659004131 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 598659004132 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 598659004133 homotrimer interaction site [polypeptide binding]; other site 598659004134 putative active site [active] 598659004135 hypothetical protein; Provisional; Region: PRK10279 598659004136 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 598659004137 active site 598659004138 nucleophile elbow; other site 598659004139 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 598659004140 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 598659004141 23S rRNA interface [nucleotide binding]; other site 598659004142 L3 interface [polypeptide binding]; other site 598659004143 prenyltransferase; Reviewed; Region: ubiA; PRK12874 598659004144 UbiA prenyltransferase family; Region: UbiA; pfam01040 598659004145 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 598659004146 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 598659004147 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 598659004148 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 598659004149 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 598659004150 binding surface 598659004151 TPR motif; other site 598659004152 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 598659004153 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 598659004154 NADH:ubiquinone oxidoreductase subunit 4 (chain M) [Energy production and conversion]; Region: NuoM; COG1008 598659004155 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 598659004156 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 598659004157 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 598659004158 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 598659004159 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 598659004160 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 598659004161 4Fe-4S binding domain; Region: Fer4; pfam00037 598659004162 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 598659004163 NADH dehydrogenase; Region: NADHdh; cl00469 598659004164 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 598659004165 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 598659004166 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 598659004167 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 598659004168 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 598659004169 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 598659004170 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 598659004171 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 598659004172 Walker A motif; other site 598659004173 ATP binding site [chemical binding]; other site 598659004174 Walker B motif; other site 598659004175 arginine finger; other site 598659004176 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 598659004177 RNA methyltransferase, RsmE family; Region: TIGR00046 598659004178 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 598659004179 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 598659004180 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 598659004181 putative active site [active] 598659004182 Predicted membrane protein [Function unknown]; Region: COG4267 598659004183 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_3; cd03813 598659004184 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 598659004185 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 598659004186 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 598659004187 dimerization interface [polypeptide binding]; other site 598659004188 active site 598659004189 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 598659004190 active site 598659004191 Zn binding site [ion binding]; other site 598659004192 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 598659004193 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 598659004194 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659004195 metal binding site [ion binding]; metal-binding site 598659004196 active site 598659004197 I-site; other site 598659004198 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 598659004199 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 598659004200 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 598659004201 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 598659004202 HlyD family secretion protein; Region: HlyD_3; pfam13437 598659004203 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 598659004204 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 598659004205 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 598659004206 G1 box; other site 598659004207 putative GEF interaction site [polypeptide binding]; other site 598659004208 GTP/Mg2+ binding site [chemical binding]; other site 598659004209 Switch I region; other site 598659004210 G2 box; other site 598659004211 G3 box; other site 598659004212 Switch II region; other site 598659004213 G4 box; other site 598659004214 G5 box; other site 598659004215 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 598659004216 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 598659004217 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 598659004218 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 598659004219 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 598659004220 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 598659004221 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 598659004222 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 598659004223 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 598659004224 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 598659004225 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 598659004226 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 598659004227 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 598659004228 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 598659004229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 598659004230 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 598659004231 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 598659004232 substrate binding pocket [chemical binding]; other site 598659004233 membrane-bound complex binding site; other site 598659004234 hinge residues; other site 598659004235 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659004236 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659004237 metal binding site [ion binding]; metal-binding site 598659004238 active site 598659004239 I-site; other site 598659004240 hypothetical protein; Provisional; Region: PRK08609 598659004241 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 598659004242 active site 598659004243 primer binding site [nucleotide binding]; other site 598659004244 NTP binding site [chemical binding]; other site 598659004245 metal binding triad [ion binding]; metal-binding site 598659004246 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 598659004247 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 598659004248 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 598659004249 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 598659004250 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 598659004251 Putative zinc ribbon domain; Region: DUF164; pfam02591 598659004252 Uncharacterized conserved protein [Function unknown]; Region: COG0327 598659004253 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 598659004254 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 598659004255 dimer interface [polypeptide binding]; other site 598659004256 motif 1; other site 598659004257 active site 598659004258 motif 2; other site 598659004259 motif 3; other site 598659004260 Protein of unknown function DUF89; Region: DUF89; cl15397 598659004261 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 598659004262 catalytic residues [active] 598659004263 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 598659004264 AIR carboxylase; Region: AIRC; smart01001 598659004265 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 598659004266 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 598659004267 Peptidase family U32; Region: Peptidase_U32; pfam01136 598659004268 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 598659004269 histidinol-phosphatase; Provisional; Region: PRK07328 598659004270 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 598659004271 active site 598659004272 dimer interface [polypeptide binding]; other site 598659004273 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 598659004274 Major Facilitator Superfamily; Region: MFS_1; pfam07690 598659004275 putative substrate translocation pore; other site 598659004276 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 598659004277 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 598659004278 Rod binding protein; Region: Rod-binding; pfam10135 598659004279 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 598659004280 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 598659004281 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 598659004282 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 598659004283 hydrophobic ligand binding site; other site 598659004284 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 598659004285 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 598659004286 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 598659004287 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 598659004288 thiamine phosphate binding site [chemical binding]; other site 598659004289 active site 598659004290 pyrophosphate binding site [ion binding]; other site 598659004291 prephenate dehydrogenase; Validated; Region: PRK08507 598659004292 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 598659004293 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 598659004294 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 598659004295 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 598659004296 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 598659004297 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 598659004298 Surface antigen; Region: Bac_surface_Ag; pfam01103 598659004299 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 598659004300 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 598659004301 active site 598659004302 catalytic triad [active] 598659004303 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 598659004304 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 598659004305 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 598659004306 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 598659004307 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 598659004308 Protein export membrane protein; Region: SecD_SecF; pfam02355 598659004309 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 598659004310 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 598659004311 HIGH motif; other site 598659004312 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 598659004313 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 598659004314 active site 598659004315 KMSKS motif; other site 598659004316 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 598659004317 tRNA binding surface [nucleotide binding]; other site 598659004318 Lipopolysaccharide-assembly; Region: LptE; pfam04390 598659004319 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659004320 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659004321 metal binding site [ion binding]; metal-binding site 598659004322 active site 598659004323 I-site; other site 598659004324 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 598659004325 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 598659004326 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 598659004327 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 598659004328 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 598659004329 ATP binding site [chemical binding]; other site 598659004330 putative Mg++ binding site [ion binding]; other site 598659004331 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 598659004332 nucleotide binding region [chemical binding]; other site 598659004333 ATP-binding site [chemical binding]; other site 598659004334 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 598659004335 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 598659004336 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 598659004337 Walker A motif; other site 598659004338 ATP binding site [chemical binding]; other site 598659004339 Walker B motif; other site 598659004340 arginine finger; other site 598659004341 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 598659004342 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 598659004343 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 598659004344 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 598659004345 DctM-like transporters; Region: DctM; pfam06808 598659004346 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 598659004347 oligomerisation interface [polypeptide binding]; other site 598659004348 mobile loop; other site 598659004349 roof hairpin; other site 598659004350 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 598659004351 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 598659004352 ring oligomerisation interface [polypeptide binding]; other site 598659004353 ATP/Mg binding site [chemical binding]; other site 598659004354 stacking interactions; other site 598659004355 hinge regions; other site 598659004356 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 598659004357 active site 598659004358 Int/Topo IB signature motif; other site 598659004359 DNA binding site [nucleotide binding] 598659004360 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 598659004361 Response regulator receiver domain; Region: Response_reg; pfam00072 598659004362 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 598659004363 active site 598659004364 phosphorylation site [posttranslational modification] 598659004365 intermolecular recognition site; other site 598659004366 PAS domain; Region: PAS_9; pfam13426 598659004367 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 598659004368 putative active site [active] 598659004369 heme pocket [chemical binding]; other site 598659004370 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 598659004371 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 598659004372 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 598659004373 RimM N-terminal domain; Region: RimM; pfam01782 598659004374 PRC-barrel domain; Region: PRC; pfam05239 598659004375 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 598659004376 KH domain; Region: KH_4; pfam13083 598659004377 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 598659004378 signal recognition particle protein; Provisional; Region: PRK10867 598659004379 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 598659004380 P loop; other site 598659004381 GTP binding site [chemical binding]; other site 598659004382 Signal peptide binding domain; Region: SRP_SPB; pfam02978 598659004383 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 598659004384 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 598659004385 active site 598659004386 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 598659004387 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 598659004388 molybdopterin cofactor binding site; other site 598659004389 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 598659004390 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 598659004391 putative molybdopterin cofactor binding site; other site 598659004392 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 598659004393 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 598659004394 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 598659004395 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 598659004396 catalytic residues [active] 598659004397 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 598659004398 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 598659004399 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 598659004400 dihydrodipicolinate reductase; Provisional; Region: PRK00048 598659004401 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 598659004402 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 598659004403 amidophosphoribosyltransferase; Provisional; Region: PRK08525 598659004404 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 598659004405 active site 598659004406 tetramer interface [polypeptide binding]; other site 598659004407 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 598659004408 active site 598659004409 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 598659004410 Methyltransferase domain; Region: Methyltransf_23; pfam13489 598659004411 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 598659004412 S-adenosylmethionine binding site [chemical binding]; other site 598659004413 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659004414 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659004415 metal binding site [ion binding]; metal-binding site 598659004416 active site 598659004417 I-site; other site 598659004418 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 598659004419 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 598659004420 Thioredoxin domain-containing protein; Provisional; Region: PTZ00443 598659004421 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 598659004422 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 598659004423 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 598659004424 DNA repair protein RadA; Provisional; Region: PRK11823 598659004425 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 598659004426 Walker A motif; other site 598659004427 ATP binding site [chemical binding]; other site 598659004428 Walker B motif; other site 598659004429 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 598659004430 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 598659004431 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 598659004432 Peptidase family M23; Region: Peptidase_M23; pfam01551 598659004433 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 598659004434 HSP70 interaction site [polypeptide binding]; other site 598659004435 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 598659004436 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 598659004437 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 598659004438 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 598659004439 catalytic motif [active] 598659004440 Zn binding site [ion binding]; other site 598659004441 RibD C-terminal domain; Region: RibD_C; cl17279 598659004442 Sm and related proteins; Region: Sm_like; cl00259 598659004443 ribosome maturation protein RimP; Reviewed; Region: PRK00092 598659004444 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 598659004445 putative oligomer interface [polypeptide binding]; other site 598659004446 putative RNA binding site [nucleotide binding]; other site 598659004447 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 598659004448 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 598659004449 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 598659004450 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 598659004451 translation initiation factor IF-2; Region: IF-2; TIGR00487 598659004452 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 598659004453 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 598659004454 G1 box; other site 598659004455 putative GEF interaction site [polypeptide binding]; other site 598659004456 GTP/Mg2+ binding site [chemical binding]; other site 598659004457 Switch I region; other site 598659004458 G2 box; other site 598659004459 G3 box; other site 598659004460 Switch II region; other site 598659004461 G4 box; other site 598659004462 G5 box; other site 598659004463 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 598659004464 Translation-initiation factor 2; Region: IF-2; pfam11987 598659004465 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 598659004466 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 598659004467 homoserine kinase; Provisional; Region: PRK01212 598659004468 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 598659004469 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 598659004470 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 598659004471 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 598659004472 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 598659004473 septum formation inhibitor; Reviewed; Region: minC; PRK00556 598659004474 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 598659004475 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 598659004476 Peptidase family M23; Region: Peptidase_M23; pfam01551 598659004477 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 598659004478 DHH family; Region: DHH; pfam01368 598659004479 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 598659004480 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 598659004481 Amino acid permease; Region: AA_permease_2; pfam13520 598659004482 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 598659004483 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 598659004484 active site 2 [active] 598659004485 active site 1 [active] 598659004486 helicase 45; Provisional; Region: PTZ00424 598659004487 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 598659004488 ATP binding site [chemical binding]; other site 598659004489 Mg++ binding site [ion binding]; other site 598659004490 motif III; other site 598659004491 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 598659004492 nucleotide binding region [chemical binding]; other site 598659004493 ATP-binding site [chemical binding]; other site 598659004494 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 598659004495 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 598659004496 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 598659004497 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 598659004498 metal binding site [ion binding]; metal-binding site 598659004499 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 598659004500 SPFH domain / Band 7 family; Region: Band_7; pfam01145 598659004501 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 598659004502 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 598659004503 homodimer interface [polypeptide binding]; other site 598659004504 substrate-cofactor binding pocket; other site 598659004505 catalytic residue [active] 598659004506 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 598659004507 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 598659004508 NAD(P) binding site [chemical binding]; other site 598659004509 catalytic residues [active] 598659004510 Predicted dehydrogenase [General function prediction only]; Region: COG0579 598659004511 hydroxyglutarate oxidase; Provisional; Region: PRK11728 598659004512 putative recombination protein RecO; Provisional; Region: PRK13908 598659004513 Autotransporter beta-domain; Region: Autotransporter; pfam03797 598659004514 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 598659004515 HTH domain; Region: HTH_11; cl17392 598659004516 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 598659004517 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 598659004518 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 598659004519 active site 598659004520 dimer interface [polypeptide binding]; other site 598659004521 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 598659004522 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 598659004523 active site 598659004524 FMN binding site [chemical binding]; other site 598659004525 substrate binding site [chemical binding]; other site 598659004526 3Fe-4S cluster binding site [ion binding]; other site 598659004527 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 598659004528 domain interface; other site 598659004529 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 598659004530 Cysteine-rich domain; Region: CCG; pfam02754 598659004531 Cysteine-rich domain; Region: CCG; pfam02754 598659004532 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 598659004533 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 598659004534 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 598659004535 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 598659004536 NifU-like domain; Region: NifU; cl00484 598659004537 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 598659004538 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 598659004539 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 598659004540 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 598659004541 dimer interface [polypeptide binding]; other site 598659004542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 598659004543 catalytic residue [active] 598659004544 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 598659004545 murein transglycosylase C; Provisional; Region: mltC; PRK11671 598659004546 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 598659004547 N-acetyl-D-glucosamine binding site [chemical binding]; other site 598659004548 catalytic residue [active] 598659004549 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 598659004550 heterotetramer interface [polypeptide binding]; other site 598659004551 active site pocket [active] 598659004552 cleavage site 598659004553 Ion channel; Region: Ion_trans_2; pfam07885 598659004554 TrkA-N domain; Region: TrkA_N; pfam02254 598659004555 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 598659004556 TrkA-C domain; Region: TrkA_C; pfam02080 598659004557 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 598659004558 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 598659004559 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 598659004560 putative trimer interface [polypeptide binding]; other site 598659004561 putative CoA binding site [chemical binding]; other site 598659004562 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 598659004563 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659004564 metal binding site [ion binding]; metal-binding site 598659004565 active site 598659004566 I-site; other site 598659004567 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 598659004568 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 598659004569 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 598659004570 glutaminase active site [active] 598659004571 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 598659004572 dimer interface [polypeptide binding]; other site 598659004573 active site 598659004574 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 598659004575 dimer interface [polypeptide binding]; other site 598659004576 active site 598659004577 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 598659004578 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 598659004579 active site 598659004580 tetramer interface; other site 598659004581 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 598659004582 putative cation:proton antiport protein; Provisional; Region: PRK10669 598659004583 TrkA-N domain; Region: TrkA_N; pfam02254 598659004584 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 598659004585 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 598659004586 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 598659004587 RNA binding surface [nucleotide binding]; other site 598659004588 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 598659004589 active site 598659004590 KpsF/GutQ family protein; Region: kpsF; TIGR00393 598659004591 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 598659004592 putative active site [active] 598659004593 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 598659004594 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 598659004595 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 598659004596 substrate binding site [chemical binding]; other site 598659004597 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 598659004598 substrate binding site [chemical binding]; other site 598659004599 ligand binding site [chemical binding]; other site 598659004600 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 598659004601 Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]; Region: ArsC; COG1393 598659004602 ArsC family; Region: ArsC; pfam03960 598659004603 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 598659004604 active site residue [active] 598659004605 pseudaminic acid synthase; Region: PseI; TIGR03586 598659004606 NeuB family; Region: NeuB; pfam03102 598659004607 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 598659004608 NeuB binding interface [polypeptide binding]; other site 598659004609 putative substrate binding site [chemical binding]; other site 598659004610 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 598659004611 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 598659004612 NAD(P) binding site [chemical binding]; other site 598659004613 catalytic residues [active] 598659004614 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 598659004615 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 598659004616 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 598659004617 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 598659004618 active site 598659004619 CoA binding site [chemical binding]; other site 598659004620 AMP binding site [chemical binding]; other site 598659004621 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 598659004622 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 598659004623 NAD(P) binding site [chemical binding]; other site 598659004624 active site 598659004625 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 598659004626 glycerol-3-phosphate cytidylyltransferase; Region: G3P_Cytidylyltransferase; cd02171 598659004627 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 598659004628 active site 598659004629 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 598659004630 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 598659004631 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 598659004632 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 598659004633 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 598659004634 substrate binding site; other site 598659004635 dimer interface; other site 598659004636 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 598659004637 classical (c) SDRs; Region: SDR_c; cd05233 598659004638 NAD(P) binding site [chemical binding]; other site 598659004639 active site 598659004640 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 598659004641 ligand binding site; other site 598659004642 tetramer interface; other site 598659004643 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 598659004644 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 598659004645 inhibitor-cofactor binding pocket; inhibition site 598659004646 pyridoxal 5'-phosphate binding site [chemical binding]; other site 598659004647 catalytic residue [active] 598659004648 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 598659004649 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 598659004650 NAD(P) binding site [chemical binding]; other site 598659004651 homodimer interface [polypeptide binding]; other site 598659004652 substrate binding site [chemical binding]; other site 598659004653 active site 598659004654 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 598659004655 flagellin A; Reviewed; Region: PRK12584 598659004656 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 598659004657 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 598659004658 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 598659004659 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 598659004660 flagellin A; Reviewed; Region: PRK12584 598659004661 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 598659004662 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 598659004663 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 598659004664 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 598659004665 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 598659004666 rRNA binding site [nucleotide binding]; other site 598659004667 predicted 30S ribosome binding site; other site 598659004668 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 598659004669 active site 598659004670 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 598659004671 SecY translocase; Region: SecY; pfam00344 598659004672 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 598659004673 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 598659004674 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 598659004675 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 598659004676 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 598659004677 23S rRNA interface [nucleotide binding]; other site 598659004678 5S rRNA interface [nucleotide binding]; other site 598659004679 L27 interface [polypeptide binding]; other site 598659004680 L5 interface [polypeptide binding]; other site 598659004681 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 598659004682 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 598659004683 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 598659004684 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 598659004685 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 598659004686 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 598659004687 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 598659004688 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 598659004689 RNA binding site [nucleotide binding]; other site 598659004690 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 598659004691 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 598659004692 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 598659004693 L23 interface [polypeptide binding]; other site 598659004694 signal recognition particle (SRP54) interaction site; other site 598659004695 trigger factor interaction site; other site 598659004696 23S rRNA interface [nucleotide binding]; other site 598659004697 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 598659004698 23S rRNA interface [nucleotide binding]; other site 598659004699 5S rRNA interface [nucleotide binding]; other site 598659004700 putative antibiotic binding site [chemical binding]; other site 598659004701 L25 interface [polypeptide binding]; other site 598659004702 L27 interface [polypeptide binding]; other site 598659004703 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 598659004704 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 598659004705 G-X-X-G motif; other site 598659004706 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 598659004707 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 598659004708 putative translocon binding site; other site 598659004709 protein-rRNA interface [nucleotide binding]; other site 598659004710 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 598659004711 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 598659004712 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 598659004713 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 598659004714 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 598659004715 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 598659004716 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 598659004717 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 598659004718 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 598659004719 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 598659004720 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 598659004721 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 598659004722 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 598659004723 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 598659004724 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 598659004725 Walker A/P-loop; other site 598659004726 ATP binding site [chemical binding]; other site 598659004727 Q-loop/lid; other site 598659004728 ABC transporter signature motif; other site 598659004729 Walker B; other site 598659004730 D-loop; other site 598659004731 H-loop/switch region; other site 598659004732 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 598659004733 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 598659004734 Walker A/P-loop; other site 598659004735 ATP binding site [chemical binding]; other site 598659004736 Q-loop/lid; other site 598659004737 ABC transporter signature motif; other site 598659004738 Walker B; other site 598659004739 D-loop; other site 598659004740 H-loop/switch region; other site 598659004741 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 598659004742 HlyD family secretion protein; Region: HlyD; pfam00529 598659004743 HlyD family secretion protein; Region: HlyD_3; pfam13437 598659004744 Outer membrane efflux protein; Region: OEP; pfam02321 598659004745 Outer membrane efflux protein; Region: OEP; pfam02321 598659004746 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 598659004747 putative substrate translocation pore; other site 598659004748 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 598659004749 hypothetical protein; Reviewed; Region: PRK12275 598659004750 four helix bundle protein; Region: TIGR02436 598659004751 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 598659004752 HlyD family secretion protein; Region: HlyD_3; pfam13437 598659004753 Uncharacterized membrane protein, required for N-linked glycosylation [General function prediction only]; Region: COG1287 598659004754 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 598659004755 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 598659004756 Bacterial sugar transferase; Region: Bac_transf; pfam02397 598659004757 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 598659004758 active site 598659004759 O-Antigen ligase; Region: Wzy_C; pfam04932 598659004760 D-glucuronyl C5-epimerase C-terminus; Region: C5-epim_C; pfam06662 598659004761 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 598659004762 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 598659004763 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 598659004764 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 598659004765 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 598659004766 putative active site [active] 598659004767 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 598659004768 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 598659004769 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 598659004770 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 598659004771 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 598659004772 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 598659004773 NAD(P) binding site [chemical binding]; other site 598659004774 active site 598659004775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 598659004776 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 598659004777 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 598659004778 NADP-binding site; other site 598659004779 homotetramer interface [polypeptide binding]; other site 598659004780 substrate binding site [chemical binding]; other site 598659004781 homodimer interface [polypeptide binding]; other site 598659004782 active site 598659004783 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 598659004784 nudix motif; other site 598659004785 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 598659004786 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 598659004787 Substrate binding site; other site 598659004788 Cupin domain; Region: Cupin_2; cl17218 598659004789 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 598659004790 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 598659004791 putative NAD(P) binding site [chemical binding]; other site 598659004792 active site 598659004793 putative substrate binding site [chemical binding]; other site 598659004794 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 598659004795 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 598659004796 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 598659004797 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 598659004798 four helix bundle protein; Region: TIGR02436 598659004799 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 598659004800 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 598659004801 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 598659004802 NAD binding site [chemical binding]; other site 598659004803 homodimer interface [polypeptide binding]; other site 598659004804 active site 598659004805 substrate binding site [chemical binding]; other site 598659004806 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 598659004807 Flagellar FliJ protein; Region: FliJ; pfam02050 598659004808 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 598659004809 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 598659004810 GDP-binding site [chemical binding]; other site 598659004811 ACT binding site; other site 598659004812 IMP binding site; other site 598659004813 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12293 598659004814 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 598659004815 motif 1; other site 598659004816 dimer interface [polypeptide binding]; other site 598659004817 active site 598659004818 motif 2; other site 598659004819 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 598659004820 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 598659004821 catalytic residue [active] 598659004822 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 598659004823 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 598659004824 TPP-binding site [chemical binding]; other site 598659004825 dimer interface [polypeptide binding]; other site 598659004826 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 598659004827 PYR/PP interface [polypeptide binding]; other site 598659004828 dimer interface [polypeptide binding]; other site 598659004829 TPP binding site [chemical binding]; other site 598659004830 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 598659004831 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 598659004832 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 598659004833 substrate binding pocket [chemical binding]; other site 598659004834 chain length determination region; other site 598659004835 substrate-Mg2+ binding site; other site 598659004836 catalytic residues [active] 598659004837 aspartate-rich region 1; other site 598659004838 active site lid residues [active] 598659004839 aspartate-rich region 2; other site 598659004840 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 598659004841 hypothetical protein; Provisional; Region: PRK03762 598659004842 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 598659004843 tetramerization interface [polypeptide binding]; other site 598659004844 active site 598659004845 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 598659004846 [2Fe-2S] cluster binding site [ion binding]; other site 598659004847 dimer interface [polypeptide binding]; other site 598659004848 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 598659004849 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 598659004850 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 598659004851 NifU-like domain; Region: NifU; pfam01106 598659004852 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 598659004853 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 598659004854 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 598659004855 alphaNTD - beta interaction site [polypeptide binding]; other site 598659004856 alphaNTD homodimer interface [polypeptide binding]; other site 598659004857 alphaNTD - beta' interaction site [polypeptide binding]; other site 598659004858 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 598659004859 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 598659004860 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 598659004861 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 598659004862 RNA binding surface [nucleotide binding]; other site 598659004863 30S ribosomal protein S11; Validated; Region: PRK05309 598659004864 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 598659004865 30S ribosomal protein S13; Region: bact_S13; TIGR03631 598659004866 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 598659004867 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 598659004868 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 598659004869 putative dimer interface [polypeptide binding]; other site 598659004870 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 598659004871 Mechanosensitive ion channel; Region: MS_channel; pfam00924 598659004872 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 598659004873 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 598659004874 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 598659004875 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 598659004876 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 598659004877 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 598659004878 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 598659004879 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 598659004880 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 598659004881 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 598659004882 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 598659004883 homodimer interface [polypeptide binding]; other site 598659004884 active site 598659004885 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 598659004886 dimer interface [polypeptide binding]; other site 598659004887 active site 598659004888 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 598659004889 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 598659004890 putative ribose interaction site [chemical binding]; other site 598659004891 putative ADP binding site [chemical binding]; other site 598659004892 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 598659004893 active site 598659004894 nucleotide binding site [chemical binding]; other site 598659004895 HIGH motif; other site 598659004896 KMSKS motif; other site 598659004897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 598659004898 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 598659004899 NAD(P) binding site [chemical binding]; other site 598659004900 active site 598659004901 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 598659004902 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 598659004903 active site 598659004904 motif I; other site 598659004905 motif II; other site 598659004906 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 598659004907 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 598659004908 putative active site [active] 598659004909 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 598659004910 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 598659004911 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 598659004912 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 598659004913 putative ADP-binding pocket [chemical binding]; other site 598659004914 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 598659004915 trimer interface [polypeptide binding]; other site 598659004916 active site 598659004917 substrate binding site [chemical binding]; other site 598659004918 CoA binding site [chemical binding]; other site 598659004919 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 598659004920 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 598659004921 putative active site [active] 598659004922 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 598659004923 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 598659004924 putative active site [active] 598659004925 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 598659004926 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 598659004927 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 598659004928 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 598659004929 putative active site [active] 598659004930 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 598659004931 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 598659004932 putative metal binding site; other site 598659004933 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 598659004934 putative acyl-acceptor binding pocket; other site 598659004935 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 598659004936 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 598659004937 putative active site [active] 598659004938 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 598659004939 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 598659004940 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 598659004941 Walker A/P-loop; other site 598659004942 ATP binding site [chemical binding]; other site 598659004943 Q-loop/lid; other site 598659004944 ABC transporter signature motif; other site 598659004945 Walker B; other site 598659004946 D-loop; other site 598659004947 H-loop/switch region; other site 598659004948 Uncharacterized conserved protein [Function unknown]; Region: COG0062 598659004949 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 598659004950 putative substrate binding site [chemical binding]; other site 598659004951 putative ATP binding site [chemical binding]; other site 598659004952 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 598659004953 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 598659004954 active site 598659004955 metal binding site [ion binding]; metal-binding site 598659004956 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 598659004957 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 598659004958 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 598659004959 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 598659004960 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 598659004961 active site 598659004962 catalytic residues [active] 598659004963 metal binding site [ion binding]; metal-binding site 598659004964 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659004965 I-site; other site 598659004966 active site 598659004967 metal binding site [ion binding]; metal-binding site 598659004968 Clp protease; Region: CLP_protease; pfam00574 598659004969 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 598659004970 oligomer interface [polypeptide binding]; other site 598659004971 active site residues [active] 598659004972 trigger factor; Provisional; Region: tig; PRK01490 598659004973 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 598659004974 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 598659004975 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 598659004976 homodecamer interface [polypeptide binding]; other site 598659004977 GTP cyclohydrolase I; Provisional; Region: PLN03044 598659004978 active site 598659004979 putative catalytic site residues [active] 598659004980 zinc binding site [ion binding]; other site 598659004981 GTP-CH-I/GFRP interaction surface; other site 598659004982 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 598659004983 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 598659004984 Walker A motif/ATP binding site; other site 598659004985 Walker B motif; other site 598659004986 PAS domain; Region: PAS_9; pfam13426 598659004987 PAS domain; Region: PAS_9; pfam13426 598659004988 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 598659004989 putative active site [active] 598659004990 heme pocket [chemical binding]; other site 598659004991 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659004992 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659004993 metal binding site [ion binding]; metal-binding site 598659004994 active site 598659004995 I-site; other site 598659004996 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 598659004997 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 598659004998 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 598659004999 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 598659005000 Walker A/P-loop; other site 598659005001 ATP binding site [chemical binding]; other site 598659005002 Q-loop/lid; other site 598659005003 ABC transporter signature motif; other site 598659005004 Walker B; other site 598659005005 D-loop; other site 598659005006 H-loop/switch region; other site 598659005007 RNA ligase; Region: RNA_lig_T4_1; pfam09511 598659005008 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 598659005009 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659005010 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659005011 metal binding site [ion binding]; metal-binding site 598659005012 active site 598659005013 I-site; other site 598659005014 Nucleoside recognition; Region: Gate; pfam07670 598659005015 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 598659005016 AMMECR1; Region: AMMECR1; pfam01871 598659005017 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 598659005018 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 598659005019 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 598659005020 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 598659005021 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 598659005022 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 598659005023 substrate binding site [chemical binding]; other site 598659005024 ligand binding site [chemical binding]; other site 598659005025 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 598659005026 active site residue [active] 598659005027 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 598659005028 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 598659005029 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 598659005030 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 598659005031 S-adenosylmethionine binding site [chemical binding]; other site 598659005032 Predicted amidohydrolase [General function prediction only]; Region: COG0388 598659005033 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 598659005034 active site 598659005035 catalytic triad [active] 598659005036 dimer interface [polypeptide binding]; other site 598659005037 adenylosuccinate lyase; Provisional; Region: PRK08470 598659005038 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 598659005039 tetramer interface [polypeptide binding]; other site 598659005040 active site 598659005041 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 598659005042 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 598659005043 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 598659005044 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 598659005045 RNA binding surface [nucleotide binding]; other site 598659005046 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 598659005047 active site 598659005048 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 598659005049 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 598659005050 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 598659005051 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 598659005052 metal binding site 2 [ion binding]; metal-binding site 598659005053 putative DNA binding helix; other site 598659005054 metal binding site 1 [ion binding]; metal-binding site 598659005055 dimer interface [polypeptide binding]; other site 598659005056 structural Zn2+ binding site [ion binding]; other site 598659005057 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 598659005058 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 598659005059 intersubunit interface [polypeptide binding]; other site 598659005060 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 598659005061 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 598659005062 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 598659005063 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 598659005064 dimer interface [polypeptide binding]; other site 598659005065 putative PBP binding regions; other site 598659005066 ABC-ATPase subunit interface; other site 598659005067 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 598659005068 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 598659005069 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 598659005070 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 598659005071 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 598659005072 Nuclease-related domain; Region: NERD; pfam08378 598659005073 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 598659005074 Uncharacterized conserved protein [Function unknown]; Region: COG3410 598659005075 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 598659005076 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 598659005077 Walker A motif; other site 598659005078 ATP binding site [chemical binding]; other site 598659005079 Walker B motif; other site 598659005080 Uncharacterized conserved protein [Function unknown]; Region: COG3410 598659005081 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 598659005082 homodimer interface [polypeptide binding]; other site 598659005083 chemical substrate binding site [chemical binding]; other site 598659005084 oligomer interface [polypeptide binding]; other site 598659005085 metal binding site [ion binding]; metal-binding site 598659005086 Methyltransferase domain; Region: Methyltransf_23; pfam13489 598659005087 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 598659005088 S-adenosylmethionine binding site [chemical binding]; other site 598659005089 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 598659005090 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 598659005091 FeS/SAM binding site; other site 598659005092 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 598659005093 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 598659005094 ATP cone domain; Region: ATP-cone; pfam03477 598659005095 Class III ribonucleotide reductase; Region: RNR_III; cd01675 598659005096 effector binding site; other site 598659005097 active site 598659005098 Zn binding site [ion binding]; other site 598659005099 dihydroorotase; Provisional; Region: PRK05451 598659005100 active site 598659005101 Protein of unknown function (DUF493); Region: DUF493; pfam04359 598659005102 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 598659005103 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 598659005104 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 598659005105 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 598659005106 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 598659005107 S-adenosylmethionine binding site [chemical binding]; other site 598659005108 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 598659005109 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 598659005110 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 598659005111 substrate binding site [chemical binding]; other site 598659005112 glutamase interaction surface [polypeptide binding]; other site 598659005113 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 598659005114 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 598659005115 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 598659005116 FeS/SAM binding site; other site 598659005117 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 598659005118 SurA N-terminal domain; Region: SurA_N; pfam09312 598659005119 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 598659005120 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 598659005121 MarR family; Region: MarR_2; pfam12802 598659005122 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 598659005123 dimer interface [polypeptide binding]; other site 598659005124 catalytic triad [active] 598659005125 peroxidatic and resolving cysteines [active] 598659005126 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 598659005127 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 598659005128 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 598659005129 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 598659005130 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659005131 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659005132 metal binding site [ion binding]; metal-binding site 598659005133 active site 598659005134 I-site; other site 598659005135 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 598659005136 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 598659005137 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 598659005138 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 598659005139 homopentamer interface [polypeptide binding]; other site 598659005140 active site 598659005141 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 598659005142 putative RNA binding site [nucleotide binding]; other site 598659005143 Cache domain; Region: Cache_2; cl07034 598659005144 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 598659005145 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 598659005146 metal binding site [ion binding]; metal-binding site 598659005147 active site 598659005148 I-site; other site 598659005149 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 598659005150 Post-segregation antitoxin CcdA; Region: CcdA; cl02188 598659005151 Predicted membrane protein [Function unknown]; Region: COG2860 598659005152 UPF0126 domain; Region: UPF0126; pfam03458 598659005153 UPF0126 domain; Region: UPF0126; pfam03458 598659005154 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 598659005155 active site 598659005156 putative DNA-binding cleft [nucleotide binding]; other site 598659005157 dimer interface [polypeptide binding]; other site