-- dump date 20120504_163527 -- class Genbank::misc_feature -- table misc_feature_note -- id note 387093000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 387093000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 387093000003 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 387093000004 Walker A motif; other site 387093000005 ATP binding site [chemical binding]; other site 387093000006 Walker B motif; other site 387093000007 arginine finger; other site 387093000008 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 387093000009 DnaA box-binding interface [nucleotide binding]; other site 387093000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 387093000011 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 387093000012 putative DNA binding surface [nucleotide binding]; other site 387093000013 dimer interface [polypeptide binding]; other site 387093000014 beta-clamp/clamp loader binding surface; other site 387093000015 beta-clamp/translesion DNA polymerase binding surface; other site 387093000016 CTP synthetase; Validated; Region: pyrG; PRK05380 387093000017 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 387093000018 Catalytic site [active] 387093000019 active site 387093000020 UTP binding site [chemical binding]; other site 387093000021 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 387093000022 active site 387093000023 putative oxyanion hole; other site 387093000024 catalytic triad [active] 387093000025 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 387093000026 DHH family; Region: DHH; pfam01368 387093000027 DHHA1 domain; Region: DHHA1; pfam02272 387093000028 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 387093000029 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 387093000030 trimerization site [polypeptide binding]; other site 387093000031 active site 387093000032 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 387093000033 NifU-like domain; Region: NifU; cl00484 387093000034 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 387093000035 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 387093000036 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 387093000037 catalytic residue [active] 387093000038 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 387093000039 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 387093000040 homodecamer interface [polypeptide binding]; other site 387093000041 GTP cyclohydrolase I; Provisional; Region: PLN03044 387093000042 active site 387093000043 putative catalytic site residues [active] 387093000044 zinc binding site [ion binding]; other site 387093000045 GTP-CH-I/GFRP interaction surface; other site 387093000046 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 387093000047 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 387093000048 minor groove reading motif; other site 387093000049 helix-hairpin-helix signature motif; other site 387093000050 substrate binding pocket [chemical binding]; other site 387093000051 active site 387093000052 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 387093000053 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 387093000054 DNA binding and oxoG recognition site [nucleotide binding] 387093000055 trigger factor; Provisional; Region: tig; PRK01490 387093000056 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 387093000057 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 387093000058 Clp protease; Region: CLP_protease; pfam00574 387093000059 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 387093000060 oligomer interface [polypeptide binding]; other site 387093000061 active site residues [active] 387093000062 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 387093000063 active site 387093000064 catalytic residues [active] 387093000065 metal binding site [ion binding]; metal-binding site 387093000066 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 387093000067 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 387093000068 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093000069 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 387093000070 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 387093000071 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 387093000072 Helix-turn-helix domains; Region: HTH; cl00088 387093000073 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 387093000074 putative dimerization interface [polypeptide binding]; other site 387093000075 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 387093000076 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 387093000077 GTP binding site; other site 387093000078 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 387093000079 Avian adenovirus fibre; Region: Av_adeno_fibre; pfam06536 387093000080 RDD family; Region: RDD; cl00746 387093000081 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 387093000082 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 387093000083 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 387093000084 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 387093000085 Type II secretory pathway, component PulC [Intracellular trafficking and secretion]; Region: PulC; COG3031 387093000086 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 387093000087 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 387093000088 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 387093000089 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 387093000090 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 387093000091 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 387093000092 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 387093000093 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 387093000094 Walker A motif; other site 387093000095 ATP binding site [chemical binding]; other site 387093000096 Walker B motif; other site 387093000097 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 387093000098 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 387093000099 Domain of unknown function DUF87; Region: DUF87; pfam01935 387093000100 AAA-like domain; Region: AAA_10; pfam12846 387093000101 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 387093000102 PAS domain; Region: PAS_9; pfam13426 387093000103 putative active site [active] 387093000104 heme pocket [chemical binding]; other site 387093000105 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 387093000106 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 387093000107 active site 387093000108 ribosome recycling factor; Reviewed; Region: frr; PRK00083 387093000109 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 387093000110 hinge region; other site 387093000111 Preprotein translocase SecG subunit; Region: SecG; cl09123 387093000112 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 387093000113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093000114 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 387093000115 Pseudogene. Similar to DNA mismatch repair protein MutS. This CDS appears to have a frameshift mutation following codon 416. 387093000116 Probable gene remnant. Similar to the C-terminal region of Thiomicrospira denitrificans ATCC 33889 DNA mismatch repair protein MutS (1020 aa) Tmden_1446. 387093000117 Probable gene remnant. Similar to the N-terminal region of Thiomicrospira denitrificans ATCC 33889 DNA mismatch repair protein MutS (1020 aa) Tmden_1446. 387093000118 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 387093000119 ribosomal protein L20; Region: rpl20; CHL00068 387093000120 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 387093000121 23S rRNA binding site [nucleotide binding]; other site 387093000122 L21 binding site [polypeptide binding]; other site 387093000123 L13 binding site [polypeptide binding]; other site 387093000124 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 387093000125 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 387093000126 Zn2+ binding site [ion binding]; other site 387093000127 Mg2+ binding site [ion binding]; other site 387093000128 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 387093000129 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 387093000130 Domain of unknown function DUF302; Region: DUF302; cl01364 387093000131 Cytochrome c; Region: Cytochrom_C; cl11414 387093000132 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 387093000133 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093000134 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 387093000135 Moco binding site; other site 387093000136 metal coordination site [ion binding]; other site 387093000137 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 387093000138 Cytochrome c; Region: Cytochrom_C; cl11414 387093000139 Cytochrome c; Region: Cytochrom_C; cl11414 387093000140 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 387093000141 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 387093000142 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 387093000143 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 387093000144 MOSC domain; Region: MOSC; pfam03473 387093000145 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 387093000146 binding surface 387093000147 TPR motif; other site 387093000148 TPR repeat; Region: TPR_11; pfam13414 387093000149 Tetratricopeptide repeat; Region: TPR_12; pfam13424 387093000150 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 387093000151 binding surface 387093000152 TPR motif; other site 387093000153 Tetratricopeptide repeat; Region: TPR_12; pfam13424 387093000154 Domain of unknown function DUF302; Region: DUF302; cl01364 387093000155 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 387093000156 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 387093000157 PPIC-type PPIASE domain; Region: Rotamase; cl08278 387093000158 HupE / UreJ protein; Region: HupE_UreJ; cl01011 387093000159 peptide chain release factor 1; Validated; Region: prfA; PRK00591 387093000160 RF-1 domain; Region: RF-1; cl02875 387093000161 RF-1 domain; Region: RF-1; cl02875 387093000162 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 387093000163 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 387093000164 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 387093000165 active site 387093000166 substrate binding site [chemical binding]; other site 387093000167 metal binding site [ion binding]; metal-binding site 387093000168 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 387093000169 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 387093000170 SdiA-regulated; Region: SdiA-regulated; cd09971 387093000171 putative active site [active] 387093000172 Paraquat-inducible protein A; Region: PqiA; pfam04403 387093000173 Protein of unknown function (DUF493); Region: DUF493; cl01102 387093000174 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 387093000175 trimer interface [polypeptide binding]; other site 387093000176 dimer interface [polypeptide binding]; other site 387093000177 putative active site [active] 387093000178 multiple promoter invertase; Provisional; Region: mpi; PRK13413 387093000179 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 387093000180 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 387093000181 DNA-binding interface [nucleotide binding]; DNA binding site 387093000182 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 387093000183 4Fe-4S binding domain; Region: Fer4_5; pfam12801 387093000184 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 387093000185 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 387093000186 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 387093000187 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 387093000188 dimer interface [polypeptide binding]; other site 387093000189 catalytic triad [active] 387093000190 peroxidatic and resolving cysteines [active] 387093000191 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 387093000192 Peptidase S46; Region: Peptidase_S46; pfam10459 387093000193 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 387093000194 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 387093000195 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 387093000196 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 387093000197 NMT1-like family; Region: NMT1_2; cl15260 387093000198 recombinase A; Provisional; Region: recA; PRK09354 387093000199 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 387093000200 hexamer interface [polypeptide binding]; other site 387093000201 Walker A motif; other site 387093000202 ATP binding site [chemical binding]; other site 387093000203 Walker B motif; other site 387093000204 enolase; Provisional; Region: eno; PRK00077 387093000205 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 387093000206 dimer interface [polypeptide binding]; other site 387093000207 metal binding site [ion binding]; metal-binding site 387093000208 substrate binding pocket [chemical binding]; other site 387093000209 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 387093000210 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 387093000211 biotin synthase; Provisional; Region: PRK08508 387093000212 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 387093000213 FeS/SAM binding site; other site 387093000214 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 387093000215 DNA topoisomerase I; Validated; Region: PRK05582 387093000216 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 387093000217 active site 387093000218 interdomain interaction site; other site 387093000219 putative metal-binding site [ion binding]; other site 387093000220 nucleotide binding site [chemical binding]; other site 387093000221 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 387093000222 domain I; other site 387093000223 DNA binding groove [nucleotide binding] 387093000224 phosphate binding site [ion binding]; other site 387093000225 domain II; other site 387093000226 domain III; other site 387093000227 nucleotide binding site [chemical binding]; other site 387093000228 catalytic site [active] 387093000229 domain IV; other site 387093000230 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 387093000231 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 387093000232 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 387093000233 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; cl11574 387093000234 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 387093000235 trimer interface [polypeptide binding]; other site 387093000236 active site 387093000237 SurA N-terminal domain; Region: SurA_N_3; cl07813 387093000238 PPIC-type PPIASE domain; Region: Rotamase; cl08278 387093000239 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093000240 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 387093000241 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 387093000242 putative trimer interface [polypeptide binding]; other site 387093000243 putative active site [active] 387093000244 putative substrate binding site [chemical binding]; other site 387093000245 putative CoA binding site [chemical binding]; other site 387093000246 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 387093000247 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 387093000248 inhibitor-cofactor binding pocket; inhibition site 387093000249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093000250 catalytic residue [active] 387093000251 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 387093000252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093000253 This family is most closely related to the GT1 family of glycosyltransferases. AmsK is involved in the biosynthesis of amylovoran, which functions as a virulence factor. It functions as a glycosyl transferase which transfers galactose from UDP-galactose...; Region: GT1_AmsK_like; cd04946 387093000254 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 387093000255 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 387093000256 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 387093000257 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 387093000258 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 387093000259 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 387093000260 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 387093000261 Ligand binding site; other site 387093000262 Oligosaccharyl transferase STT3 subunit; Region: STT3; pfam02516 387093000263 Uncharacterized membrane protein, required for N-linked glycosylation [General function prediction only]; Region: COG1287 387093000264 Bacterial sugar transferase; Region: Bac_transf; cl00939 387093000265 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 387093000266 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 387093000267 inhibitor-cofactor binding pocket; inhibition site 387093000268 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093000269 catalytic residue [active] 387093000270 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 387093000271 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 387093000272 NAD(P) binding site [chemical binding]; other site 387093000273 homodimer interface [polypeptide binding]; other site 387093000274 substrate binding site [chemical binding]; other site 387093000275 active site 387093000276 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 387093000277 Protein of unknown function, DUF655; Region: DUF655; pfam04919 387093000278 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 387093000279 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 387093000280 active site 387093000281 HIGH motif; other site 387093000282 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 387093000283 active site 387093000284 KMSKS motif; other site 387093000285 NMT1-like family; Region: NMT1_2; cl15260 387093000286 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 387093000287 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 387093000288 MoaE interaction surface [polypeptide binding]; other site 387093000289 MoeB interaction surface [polypeptide binding]; other site 387093000290 thiocarboxylated glycine; other site 387093000291 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 387093000292 MoaE homodimer interface [polypeptide binding]; other site 387093000293 MoaD interaction [polypeptide binding]; other site 387093000294 active site residues [active] 387093000295 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 387093000296 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 387093000297 dimer interface [polypeptide binding]; other site 387093000298 putative functional site; other site 387093000299 putative MPT binding site; other site 387093000300 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 387093000301 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 387093000302 Catalytic site [active] 387093000303 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 387093000304 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 387093000305 Domain of unknown function (DUF309); Region: DUF309; cl00667 387093000306 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 387093000307 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cl00229 387093000308 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 387093000309 Autoinducer-2 kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 387093000310 putative N- and C-terminal domain interface [polypeptide binding]; other site 387093000311 putative active site [active] 387093000312 putative MgATP binding site [chemical binding]; other site 387093000313 catalytic site [active] 387093000314 metal binding site [ion binding]; metal-binding site 387093000315 putative carbohydrate binding site [chemical binding]; other site 387093000316 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 387093000317 short chain dehydrogenase; Validated; Region: PRK08324 387093000318 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 387093000319 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 387093000320 Protein of unknown function (DUF328); Region: DUF328; cl01143 387093000321 elongation factor Tu; Reviewed; Region: PRK00049 387093000322 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 387093000323 G1 box; other site 387093000324 GEF interaction site [polypeptide binding]; other site 387093000325 GTP/Mg2+ binding site [chemical binding]; other site 387093000326 Switch I region; other site 387093000327 G2 box; other site 387093000328 G3 box; other site 387093000329 Switch II region; other site 387093000330 G4 box; other site 387093000331 G5 box; other site 387093000332 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 387093000333 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 387093000334 Antibiotic Binding Site [chemical binding]; other site 387093000335 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 387093000336 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 387093000337 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 387093000338 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 387093000339 putative homodimer interface [polypeptide binding]; other site 387093000340 KOW motif; Region: KOW; cl00354 387093000341 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 387093000342 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 387093000343 23S rRNA interface [nucleotide binding]; other site 387093000344 L7/L12 interface [polypeptide binding]; other site 387093000345 putative thiostrepton binding site; other site 387093000346 L25 interface [polypeptide binding]; other site 387093000347 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 387093000348 mRNA/rRNA interface [nucleotide binding]; other site 387093000349 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 387093000350 23S rRNA interface [nucleotide binding]; other site 387093000351 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 387093000352 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 387093000353 L11 interface [polypeptide binding]; other site 387093000354 putative EF-Tu interaction site [polypeptide binding]; other site 387093000355 putative EF-G interaction site [polypeptide binding]; other site 387093000356 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 387093000357 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 387093000358 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 387093000359 RPB11 interaction site [polypeptide binding]; other site 387093000360 RPB12 interaction site [polypeptide binding]; other site 387093000361 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 387093000362 RPB3 interaction site [polypeptide binding]; other site 387093000363 RPB1 interaction site [polypeptide binding]; other site 387093000364 RPB11 interaction site [polypeptide binding]; other site 387093000365 RPB10 interaction site [polypeptide binding]; other site 387093000366 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 387093000367 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 387093000368 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 387093000369 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 387093000370 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 387093000371 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 387093000372 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 387093000373 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 387093000374 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional; Region: PRK14844 387093000375 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 387093000376 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 387093000377 DNA binding site [nucleotide binding] 387093000378 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 387093000379 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 387093000380 S17 interaction site [polypeptide binding]; other site 387093000381 S8 interaction site; other site 387093000382 16S rRNA interaction site [nucleotide binding]; other site 387093000383 streptomycin interaction site [chemical binding]; other site 387093000384 23S rRNA interaction site [nucleotide binding]; other site 387093000385 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 387093000386 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 387093000387 elongation factor G; Reviewed; Region: PRK00007 387093000388 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 387093000389 G1 box; other site 387093000390 putative GEF interaction site [polypeptide binding]; other site 387093000391 GTP/Mg2+ binding site [chemical binding]; other site 387093000392 Switch I region; other site 387093000393 G2 box; other site 387093000394 G3 box; other site 387093000395 Switch II region; other site 387093000396 G4 box; other site 387093000397 G5 box; other site 387093000398 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 387093000399 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 387093000400 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 387093000401 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 387093000402 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 387093000403 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 387093000404 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 387093000405 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 387093000406 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 387093000407 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 387093000408 anchoring element; other site 387093000409 dimer interface [polypeptide binding]; other site 387093000410 ATP binding site [chemical binding]; other site 387093000411 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 387093000412 active site 387093000413 putative metal-binding site [ion binding]; other site 387093000414 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 387093000415 UGMP family protein; Validated; Region: PRK09604 387093000416 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 387093000417 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 387093000418 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 387093000419 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 387093000420 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 387093000421 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 387093000422 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 387093000423 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 387093000424 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 387093000425 Domain of unknown function (DUF814); Region: DUF814; pfam05670 387093000426 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 387093000427 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 387093000428 substrate binding site [chemical binding]; other site 387093000429 ligand binding site [chemical binding]; other site 387093000430 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 387093000431 active site 387093000432 NTP binding site [chemical binding]; other site 387093000433 metal binding triad [ion binding]; metal-binding site 387093000434 antibiotic binding site [chemical binding]; other site 387093000435 Protein of unknown function DUF86; Region: DUF86; cl01031 387093000436 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 387093000437 active site 387093000438 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 387093000439 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 387093000440 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 387093000441 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 387093000442 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093000443 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 387093000444 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 387093000445 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093000446 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 387093000447 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 387093000448 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 387093000449 ATP-grasp domain; Region: ATP-grasp_4; cl03087 387093000450 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 387093000451 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 387093000452 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 387093000453 putative substrate binding site [chemical binding]; other site 387093000454 putative ATP binding site [chemical binding]; other site 387093000455 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 387093000456 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 387093000457 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 387093000458 active site 387093000459 substrate binding site [chemical binding]; other site 387093000460 cosubstrate binding site; other site 387093000461 catalytic site [active] 387093000462 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 387093000463 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 387093000464 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 387093000465 MatE; Region: MatE; cl10513 387093000466 MatE; Region: MatE; cl10513 387093000467 shikimate kinase; Reviewed; Region: aroK; PRK00131 387093000468 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 387093000469 ADP binding site [chemical binding]; other site 387093000470 magnesium binding site [ion binding]; other site 387093000471 putative shikimate binding site; other site 387093000472 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 387093000473 substrate binding pocket [chemical binding]; other site 387093000474 chain length determination region; other site 387093000475 substrate-Mg2+ binding site; other site 387093000476 catalytic residues [active] 387093000477 aspartate-rich region 1; other site 387093000478 active site lid residues [active] 387093000479 aspartate-rich region 2; other site 387093000480 transketolase; Reviewed; Region: PRK05899 387093000481 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 387093000482 TPP-binding site [chemical binding]; other site 387093000483 dimer interface [polypeptide binding]; other site 387093000484 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 387093000485 PYR/PP interface [polypeptide binding]; other site 387093000486 dimer interface [polypeptide binding]; other site 387093000487 TPP binding site [chemical binding]; other site 387093000488 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 387093000489 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 387093000490 Major Facilitator Superfamily; Region: MFS_1; pfam07690 387093000491 putative substrate translocation pore; other site 387093000492 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 387093000493 active site 387093000494 dimerization interface [polypeptide binding]; other site 387093000495 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 387093000496 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 387093000497 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 387093000498 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 387093000499 Coenzyme A binding pocket [chemical binding]; other site 387093000500 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 387093000501 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 387093000502 metal binding site [ion binding]; metal-binding site 387093000503 dimer interface [polypeptide binding]; other site 387093000504 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 387093000505 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 387093000506 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 387093000507 catalytic residue [active] 387093000508 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12293 387093000509 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 387093000510 motif 1; other site 387093000511 dimer interface [polypeptide binding]; other site 387093000512 active site 387093000513 motif 2; other site 387093000514 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 387093000515 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 387093000516 GDP-binding site [chemical binding]; other site 387093000517 ACT binding site; other site 387093000518 IMP binding site; other site 387093000519 Protein of unknown function (DUF507); Region: DUF507; cl01112 387093000520 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 387093000521 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 387093000522 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 387093000523 catalytic site [active] 387093000524 subunit interface [polypeptide binding]; other site 387093000525 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 387093000526 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 387093000527 ATP-grasp domain; Region: ATP-grasp_4; cl03087 387093000528 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 387093000529 Low-spin heme binding site [chemical binding]; other site 387093000530 D-pathway; other site 387093000531 Putative water exit pathway; other site 387093000532 Binuclear center (active site) [active] 387093000533 K-pathway; other site 387093000534 Putative proton exit pathway; other site 387093000535 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 387093000536 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 387093000537 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cl00282 387093000538 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 387093000539 Cytochrome c; Region: Cytochrom_C; cl11414 387093000540 Cytochrome c; Region: Cytochrom_C; cl11414 387093000541 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 387093000542 FixH; Region: FixH; cl01254 387093000543 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 387093000544 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 387093000545 Transposase IS200 like; Region: Y1_Tnp; cl00848 387093000546 putative recombination protein RecB; Provisional; Region: PRK13909 387093000547 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 387093000548 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 387093000549 23S rRNA interface [nucleotide binding]; other site 387093000550 L3 interface [polypeptide binding]; other site 387093000551 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 387093000552 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; cl00234 387093000553 active site 387093000554 catalytic residues [active] 387093000555 metal binding site [ion binding]; metal-binding site 387093000556 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 387093000557 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_18; cd08505 387093000558 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 387093000559 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 387093000560 dimer interface [polypeptide binding]; other site 387093000561 conserved gate region; other site 387093000562 putative PBP binding loops; other site 387093000563 ABC-ATPase subunit interface; other site 387093000564 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 387093000565 dimer interface [polypeptide binding]; other site 387093000566 conserved gate region; other site 387093000567 putative PBP binding loops; other site 387093000568 ABC-ATPase subunit interface; other site 387093000569 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 387093000570 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 387093000571 Walker A/P-loop; other site 387093000572 ATP binding site [chemical binding]; other site 387093000573 Q-loop/lid; other site 387093000574 ABC transporter signature motif; other site 387093000575 Walker B; other site 387093000576 D-loop; other site 387093000577 H-loop/switch region; other site 387093000578 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 387093000579 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 387093000580 Walker A/P-loop; other site 387093000581 ATP binding site [chemical binding]; other site 387093000582 Q-loop/lid; other site 387093000583 ABC transporter signature motif; other site 387093000584 Walker B; other site 387093000585 D-loop; other site 387093000586 H-loop/switch region; other site 387093000587 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 387093000588 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 387093000589 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 387093000590 motif II; other site 387093000591 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 387093000592 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 387093000593 pyruvate flavodoxin oxidoreductase subunit delta; Reviewed; Region: porD; PRK09625 387093000594 4Fe-4S binding domain; Region: Fer4; cl02805 387093000595 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 387093000596 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 387093000597 dimer interface [polypeptide binding]; other site 387093000598 PYR/PP interface [polypeptide binding]; other site 387093000599 TPP binding site [chemical binding]; other site 387093000600 substrate binding site [chemical binding]; other site 387093000601 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 387093000602 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 387093000603 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 387093000604 TPP-binding site [chemical binding]; other site 387093000605 putative dimer interface [polypeptide binding]; other site 387093000606 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 387093000607 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 387093000608 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 387093000609 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; cl15754 387093000610 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 387093000611 Lumazine binding domain; Region: Lum_binding; pfam00677 387093000612 Lumazine binding domain; Region: Lum_binding; pfam00677 387093000613 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 387093000614 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093000615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093000616 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 387093000617 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 387093000618 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 387093000619 [2Fe-2S] cluster binding site [ion binding]; other site 387093000620 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 387093000621 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; cd00284 387093000622 intrachain domain interface; other site 387093000623 interchain domain interface [polypeptide binding]; other site 387093000624 heme bH binding site [chemical binding]; other site 387093000625 Qi binding site; other site 387093000626 heme bL binding site [chemical binding]; other site 387093000627 Qo binding site; other site 387093000628 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 387093000629 interchain domain interface [polypeptide binding]; other site 387093000630 intrachain domain interface; other site 387093000631 Qi binding site; other site 387093000632 Qo binding site; other site 387093000633 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 387093000634 Cytochrome c; Region: Cytochrom_C; cl11414 387093000635 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 387093000636 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 387093000637 FeS/SAM binding site; other site 387093000638 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 387093000639 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 387093000640 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 387093000641 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 387093000642 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 387093000643 putative substrate translocation pore; other site 387093000644 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 387093000645 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 387093000646 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 387093000647 dimer interface [polypeptide binding]; other site 387093000648 putative functional site; other site 387093000649 putative MPT binding site; other site 387093000650 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 387093000651 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 387093000652 Cytochrome c; Region: Cytochrom_C; cl11414 387093000653 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 387093000654 Predicted methyltransferases [General function prediction only]; Region: COG0313 387093000655 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 387093000656 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 387093000657 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 387093000658 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 387093000659 aminotransferase; Validated; Region: PRK08175 387093000660 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 387093000661 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093000662 homodimer interface [polypeptide binding]; other site 387093000663 catalytic residue [active] 387093000664 homoserine dehydrogenase; Provisional; Region: PRK06349 387093000665 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093000666 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 387093000667 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 387093000668 Protein of unknown function (DUF520); Region: DUF520; cl00723 387093000669 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 387093000670 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 387093000671 molybdopterin cofactor binding site; other site 387093000672 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 387093000673 molybdopterin cofactor binding site; other site 387093000674 ORF6N domain; Region: ORF6N; pfam10543 387093000675 Restriction endonuclease; Region: Mrr_cat; cl00516 387093000676 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 387093000677 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 387093000678 catalytic residues [active] 387093000679 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093000680 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 387093000681 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 387093000682 dihydrodipicolinate reductase; Provisional; Region: PRK00048 387093000683 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093000684 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 387093000685 amidophosphoribosyltransferase; Provisional; Region: PRK08525 387093000686 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 387093000687 active site 387093000688 tetramer interface [polypeptide binding]; other site 387093000689 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 387093000690 active site 387093000691 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 387093000692 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 387093000693 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 387093000694 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 387093000695 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 387093000696 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 387093000697 homodimer interface [polypeptide binding]; other site 387093000698 substrate-cofactor binding pocket; other site 387093000699 catalytic residue [active] 387093000700 Cytochrome c; Region: Cytochrom_C; cl11414 387093000701 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 387093000702 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 387093000703 D-pathway; other site 387093000704 Low-spin heme binding site [chemical binding]; other site 387093000705 Putative water exit pathway; other site 387093000706 Binuclear center (active site) [active] 387093000707 K-pathway; other site 387093000708 Putative proton exit pathway; other site 387093000709 Cytochrome c; Region: Cytochrom_C; cl11414 387093000710 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 387093000711 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 387093000712 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 387093000713 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093000714 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 387093000715 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093000716 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 387093000717 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 387093000718 Cation transport protein; Region: TrkH; cl10514 387093000719 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 387093000720 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 387093000721 Anthranilate phosphoribosyltransferase [Amino acid transport and metabolism]; Region: TrpD; COG0547 387093000722 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 387093000723 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 387093000724 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 387093000725 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 387093000726 dimer interface [polypeptide binding]; other site 387093000727 putative radical transfer pathway; other site 387093000728 diiron center [ion binding]; other site 387093000729 tyrosyl radical; other site 387093000730 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 387093000731 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093000732 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 387093000733 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 387093000734 ATP cone domain; Region: ATP-cone; pfam03477 387093000735 Class III ribonucleotide reductase; Region: RNR_III; cd01675 387093000736 effector binding site; other site 387093000737 active site 387093000738 Zn binding site [ion binding]; other site 387093000739 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 387093000740 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 387093000741 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 387093000742 FeS/SAM binding site; other site 387093000743 hydrogenase 4 subunit B; Validated; Region: PRK06521 387093000744 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 387093000745 NADH dehydrogenase; Region: NADHdh; cl00469 387093000746 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 387093000747 NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; Region: NuoN; COG1007 387093000748 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 387093000749 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 387093000750 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 387093000751 NADH dehydrogenase subunit B; Provisional; Region: PRK14816 387093000752 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 387093000753 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; cl02915 387093000754 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 387093000755 Cl- selectivity filter; other site 387093000756 Cl- binding residues [ion binding]; other site 387093000757 pore gating glutamate residue; other site 387093000758 dimer interface [polypeptide binding]; other site 387093000759 short chain dehydrogenase; Validated; Region: PRK06182 387093000760 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 387093000761 NADP binding site [chemical binding]; other site 387093000762 active site 387093000763 steroid binding site; other site 387093000764 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 387093000765 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 387093000766 Cytochrome c; Region: Cytochrom_C; cl11414 387093000767 short chain dehydrogenase; Validated; Region: PRK06182 387093000768 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 387093000769 NADP binding site [chemical binding]; other site 387093000770 active site 387093000771 steroid binding site; other site 387093000772 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 387093000773 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 387093000774 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 387093000775 Helix-turn-helix domains; Region: HTH; cl00088 387093000776 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 387093000777 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093000778 HlyD family secretion protein; Region: HlyD; pfam00529 387093000779 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093000780 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 387093000781 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 387093000782 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 387093000783 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093000784 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093000785 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 387093000786 Major Facilitator Superfamily; Region: MFS_1; pfam07690 387093000787 putative substrate translocation pore; other site 387093000788 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 387093000789 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 387093000790 Walker A/P-loop; other site 387093000791 ATP binding site [chemical binding]; other site 387093000792 Q-loop/lid; other site 387093000793 ABC transporter signature motif; other site 387093000794 Walker B; other site 387093000795 D-loop; other site 387093000796 H-loop/switch region; other site 387093000797 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 387093000798 Walker A/P-loop; other site 387093000799 ATP binding site [chemical binding]; other site 387093000800 Q-loop/lid; other site 387093000801 ABC transporter signature motif; other site 387093000802 Walker B; other site 387093000803 D-loop; other site 387093000804 H-loop/switch region; other site 387093000805 ABC-2 type transporter; Region: ABC2_membrane; cl11417 387093000806 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 387093000807 ABC-2 type transporter; Region: ABC2_membrane; cl11417 387093000808 Mechanosensitive ion channel; Region: MS_channel; pfam00924 387093000809 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 387093000810 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 387093000811 active site 387093000812 nucleophile elbow; other site 387093000813 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 387093000814 active site 387093000815 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 387093000816 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 387093000817 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 387093000818 D-pathway; other site 387093000819 Low-spin heme binding site [chemical binding]; other site 387093000820 Putative water exit pathway; other site 387093000821 Binuclear center (active site) [active] 387093000822 K-pathway; other site 387093000823 Putative proton exit pathway; other site 387093000824 Cytochrome c; Region: Cytochrom_C; cl11414 387093000825 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 387093000826 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 387093000827 FeS/SAM binding site; other site 387093000828 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 387093000829 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 387093000830 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 387093000831 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 387093000832 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 387093000833 ligand binding site [chemical binding]; other site 387093000834 flexible hinge region; other site 387093000835 Helix-turn-helix domains; Region: HTH; cl00088 387093000836 Helix-turn-helix domains; Region: HTH; cl00088 387093000837 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 387093000838 Helix-turn-helix domains; Region: HTH; cl00088 387093000839 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093000840 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 387093000841 Domain of unknown function DUF59; Region: DUF59; cl00941 387093000842 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 387093000843 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 387093000844 molybdopterin cofactor binding site; other site 387093000845 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 387093000846 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 387093000847 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 387093000848 molybdopterin cofactor binding site; other site 387093000849 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 387093000850 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 387093000851 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 387093000852 4Fe-4S binding domain; Region: Fer4_5; pfam12801 387093000853 4Fe-4S binding domain; Region: Fer4_5; pfam12801 387093000854 Cytochrome c; Region: Cytochrom_C; cl11414 387093000855 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 387093000856 ferredoxin-type protein; Provisional; Region: PRK10194 387093000857 4Fe-4S binding domain; Region: Fer4; cl02805 387093000858 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 387093000859 structural tetrad; other site 387093000860 PQQ-like domain; Region: PQQ_2; pfam13360 387093000861 NapD protein; Region: NapD; cl01163 387093000862 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Provisional; Region: PRK12779 387093000863 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 387093000864 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 387093000865 NAD(P) binding site [chemical binding]; other site 387093000866 catalytic residues [active] 387093000867 Protein of unknown function (DUF420); Region: DUF420; cl00989 387093000868 Protein of unknown function (DUF523); Region: DUF523; cl00733 387093000869 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 387093000870 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 387093000871 protein binding site [polypeptide binding]; other site 387093000872 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 387093000873 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 387093000874 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 387093000875 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 387093000876 catalytic triad [active] 387093000877 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 387093000878 rRNA interaction site [nucleotide binding]; other site 387093000879 S8 interaction site; other site 387093000880 putative laminin-1 binding site; other site 387093000881 Uncharacterized conserved protein [Function unknown]; Region: COG3743 387093000882 elongation factor Ts; Provisional; Region: tsf; PRK09377 387093000883 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 387093000884 Elongation factor TS; Region: EF_TS; pfam00889 387093000885 Elongation factor TS; Region: EF_TS; pfam00889 387093000886 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 387093000887 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 387093000888 Walker A/P-loop; other site 387093000889 ATP binding site [chemical binding]; other site 387093000890 Q-loop/lid; other site 387093000891 ABC transporter signature motif; other site 387093000892 Walker B; other site 387093000893 D-loop; other site 387093000894 H-loop/switch region; other site 387093000895 peptide chain release factor 2; Validated; Region: prfB; PRK00578 387093000896 RF-1 domain; Region: RF-1; cl02875 387093000897 RF-1 domain; Region: RF-1; cl02875 387093000898 pantoate--beta-alanine ligase; Region: panC; TIGR00018 387093000899 Pantoate-beta-alanine ligase; Region: PanC; cd00560 387093000900 active site 387093000901 ATP-binding site [chemical binding]; other site 387093000902 pantoate-binding site; other site 387093000903 HXXH motif; other site 387093000904 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 387093000905 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 387093000906 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 387093000907 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 387093000908 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 387093000909 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 387093000910 homodimer interface [polypeptide binding]; other site 387093000911 active site 387093000912 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 387093000913 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 387093000914 Substrate binding site; other site 387093000915 Cupin domain; Region: Cupin_2; cl09118 387093000916 ABC-2 type transporter; Region: ABC2_membrane; cl11417 387093000917 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 387093000918 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 387093000919 Walker A/P-loop; other site 387093000920 ATP binding site [chemical binding]; other site 387093000921 Q-loop/lid; other site 387093000922 ABC transporter signature motif; other site 387093000923 Walker B; other site 387093000924 D-loop; other site 387093000925 H-loop/switch region; other site 387093000926 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 387093000927 putative carbohydrate binding site [chemical binding]; other site 387093000928 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 387093000929 S-adenosylmethionine binding site [chemical binding]; other site 387093000930 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 387093000931 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 387093000932 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 387093000933 OpgC protein; Region: OpgC_C; cl00792 387093000934 UbiA prenyltransferase family; Region: UbiA; cl00337 387093000935 GtrA-like protein; Region: GtrA; cl00971 387093000936 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 387093000937 FAD binding domain; Region: FAD_binding_4; pfam01565 387093000938 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 387093000939 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093000940 NAD(P) binding site [chemical binding]; other site 387093000941 active site 387093000942 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 387093000943 binding surface 387093000944 TPR motif; other site 387093000945 TPR repeat; Region: TPR_11; pfam13414 387093000946 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 387093000947 binding surface 387093000948 TPR motif; other site 387093000949 TPR repeat; Region: TPR_11; pfam13414 387093000950 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 387093000951 TPR motif; other site 387093000952 binding surface 387093000953 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 387093000954 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 387093000955 TPR repeat; Region: TPR_11; pfam13414 387093000956 binding surface 387093000957 TPR motif; other site 387093000958 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 387093000959 binding surface 387093000960 TPR motif; other site 387093000961 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 387093000962 TPR motif; other site 387093000963 binding surface 387093000964 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 387093000965 SapC; Region: SapC; pfam07277 387093000966 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 387093000967 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 387093000968 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093000969 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093000970 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 387093000971 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 387093000972 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093000973 Walker A/P-loop; other site 387093000974 ATP binding site [chemical binding]; other site 387093000975 Q-loop/lid; other site 387093000976 ABC transporter signature motif; other site 387093000977 Walker B; other site 387093000978 D-loop; other site 387093000979 H-loop/switch region; other site 387093000980 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 387093000981 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 387093000982 NADP-binding site; other site 387093000983 homotetramer interface [polypeptide binding]; other site 387093000984 substrate binding site [chemical binding]; other site 387093000985 homodimer interface [polypeptide binding]; other site 387093000986 active site 387093000987 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093000988 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 387093000989 NAD(P) binding site [chemical binding]; other site 387093000990 active site 387093000991 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 387093000992 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 387093000993 putative ADP-binding pocket [chemical binding]; other site 387093000994 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 387093000995 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 387093000996 motif 1; other site 387093000997 active site 387093000998 motif 2; other site 387093000999 motif 3; other site 387093001000 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 387093001001 DHHA1 domain; Region: DHHA1; pfam02272 387093001002 Copper resistance protein D; Region: CopD; cl00563 387093001003 Maf-like protein; Region: Maf; pfam02545 387093001004 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 387093001005 active site 387093001006 dimer interface [polypeptide binding]; other site 387093001007 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 387093001008 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 387093001009 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 387093001010 catalytic residue [active] 387093001011 Transglycosylase; Region: Transgly; cl07896 387093001012 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 387093001013 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 387093001014 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 387093001015 glutamine synthetase, type I; Region: GlnA; TIGR00653 387093001016 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 387093001017 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 387093001018 histidinol-phosphatase; Provisional; Region: PRK07328 387093001019 PHP-associated; Region: PHP_C; pfam13263 387093001020 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 387093001021 Peptidase family U32; Region: Peptidase_U32; cl03113 387093001022 AIR carboxylase; Region: AIRC; cl00310 387093001023 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093001024 AAA domain; Region: AAA_21; pfam13304 387093001025 Walker A/P-loop; other site 387093001026 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093001027 Walker B; other site 387093001028 D-loop; other site 387093001029 H-loop/switch region; other site 387093001030 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 387093001031 dimer interface [polypeptide binding]; other site 387093001032 motif 1; other site 387093001033 active site 387093001034 motif 2; other site 387093001035 motif 3; other site 387093001036 Uncharacterized conserved protein [Function unknown]; Region: COG0327 387093001037 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 387093001038 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 387093001039 Putative zinc ribbon domain; Region: DUF164; pfam02591 387093001040 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 387093001041 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 387093001042 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 387093001043 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 387093001044 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 387093001045 active site 387093001046 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 387093001047 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 387093001048 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 387093001049 signal recognition particle protein; Provisional; Region: PRK10867 387093001050 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 387093001051 P loop; other site 387093001052 GTP binding site [chemical binding]; other site 387093001053 Signal peptide binding domain; Region: SRP_SPB; pfam02978 387093001054 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 387093001055 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 387093001056 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 387093001057 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14593 387093001058 RimM N-terminal domain; Region: RimM; pfam01782 387093001059 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 387093001060 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 387093001061 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 387093001062 SmpB-tmRNA interface; other site 387093001063 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 387093001064 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 387093001065 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 387093001066 ligand binding site [chemical binding]; other site 387093001067 flexible hinge region; other site 387093001068 Helix-turn-helix domains; Region: HTH; cl00088 387093001069 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 387093001070 putative dimer interface [polypeptide binding]; other site 387093001071 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 387093001072 putative dimer interface [polypeptide binding]; other site 387093001073 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 387093001074 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 387093001075 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 387093001076 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 387093001077 CPxP motif; other site 387093001078 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK04099 387093001079 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 387093001080 RNA binding site [nucleotide binding]; other site 387093001081 active site 387093001082 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 387093001083 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093001084 Family description; Region: UvrD_C_2; cl15862 387093001085 Transcriptional regulator [Transcription]; Region: LysR; COG0583 387093001086 Helix-turn-helix domains; Region: HTH; cl00088 387093001087 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 387093001088 dimerization interface [polypeptide binding]; other site 387093001089 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 387093001090 substrate-cofactor binding pocket; other site 387093001091 homodimer interface [polypeptide binding]; other site 387093001092 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093001093 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 387093001094 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 387093001095 dimer interface [polypeptide binding]; other site 387093001096 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093001097 catalytic residue [active] 387093001098 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 387093001099 active site clefts [active] 387093001100 zinc binding site [ion binding]; other site 387093001101 dimer interface [polypeptide binding]; other site 387093001102 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 387093001103 active site 387093001104 substrate binding pocket [chemical binding]; other site 387093001105 dimer interface [polypeptide binding]; other site 387093001106 Haemolytic domain; Region: Haemolytic; cl00506 387093001107 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 387093001108 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 387093001109 active site 387093001110 catalytic triad [active] 387093001111 Preprotein translocase subunit; Region: YajC; cl00806 387093001112 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 387093001113 Protein export membrane protein; Region: SecD_SecF; cl14618 387093001114 Preprotein translocase subunit SecF [Intracellular trafficking and secretion]; Region: SecF; COG0341 387093001115 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 387093001116 Protein export membrane protein; Region: SecD_SecF; cl14618 387093001117 TIGR03440 family protein; Region: unchr_TIGR03440 387093001118 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 387093001119 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 387093001120 S-adenosylmethionine binding site [chemical binding]; other site 387093001121 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 387093001122 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 387093001123 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093001124 homodimer interface [polypeptide binding]; other site 387093001125 catalytic residue [active] 387093001126 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 387093001127 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 387093001128 Sporulation related domain; Region: SPOR; cl10051 387093001129 CAAX protease self-immunity; Region: Abi; cl00558 387093001130 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 387093001131 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 387093001132 Periplasmic lysozyme inhibitor, I-type (PliI) and similar proteins; Region: PliI_like; cd09632 387093001133 dimer interface [polypeptide binding]; other site 387093001134 putative inhibitory loop; other site 387093001135 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 387093001136 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 387093001137 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093001138 homodimer interface [polypeptide binding]; other site 387093001139 catalytic residue [active] 387093001140 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 387093001141 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 387093001142 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 387093001143 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 387093001144 adenylate kinase; Reviewed; Region: adk; PRK00279 387093001145 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 387093001146 AMP-binding site [chemical binding]; other site 387093001147 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 387093001148 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 387093001149 Iron-sulfur protein interface; other site 387093001150 proximal heme binding site [chemical binding]; other site 387093001151 distal heme binding site [chemical binding]; other site 387093001152 dimer interface [polypeptide binding]; other site 387093001153 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 387093001154 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093001155 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 387093001156 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 387093001157 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 387093001158 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 387093001159 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 387093001160 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 387093001161 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093001162 Walker A/P-loop; other site 387093001163 ATP binding site [chemical binding]; other site 387093001164 Q-loop/lid; other site 387093001165 ABC transporter signature motif; other site 387093001166 Walker B; other site 387093001167 D-loop; other site 387093001168 H-loop/switch region; other site 387093001169 Smr domain; Region: Smr; cl02619 387093001170 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 387093001171 PQQ-like domain; Region: PQQ_2; pfam13360 387093001172 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 387093001173 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 387093001174 DNA binding site [nucleotide binding] 387093001175 Int/Topo IB signature motif; other site 387093001176 active site 387093001177 Type III pantothenate kinase; Region: Pan_kinase; cl09130 387093001178 ATP phosphoribosyltransferase; Region: HisG; cl15266 387093001179 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 387093001180 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 387093001181 S-adenosylmethionine binding site [chemical binding]; other site 387093001182 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 387093001183 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 387093001184 dimer interface [polypeptide binding]; other site 387093001185 ssDNA binding site [nucleotide binding]; other site 387093001186 tetramer (dimer of dimers) interface [polypeptide binding]; other site 387093001187 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 387093001188 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 387093001189 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 387093001190 metal binding site [ion binding]; metal-binding site 387093001191 active site 387093001192 I-site; other site 387093001193 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 387093001194 DNA polymerase III subunit delta; Validated; Region: PRK08487 387093001195 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 387093001196 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 387093001197 RNB domain; Region: RNB; pfam00773 387093001198 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093001199 Predicted dehydrogenase [General function prediction only]; Region: COG0579 387093001200 Peptidase family M48; Region: Peptidase_M48; cl12018 387093001201 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 387093001202 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 387093001203 pyruvate kinase; Provisional; Region: PRK05826 387093001204 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 387093001205 domain interfaces; other site 387093001206 active site 387093001207 Transposase domain (DUF772); Region: DUF772; cl15789 387093001208 Transposase domain (DUF772); Region: DUF772; cl15789 387093001209 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 387093001210 non-heme iron binding site [ion binding]; other site 387093001211 dimer interface [polypeptide binding]; other site 387093001212 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 387093001213 binuclear metal center [ion binding]; other site 387093001214 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 387093001215 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 387093001216 tetramer interface [polypeptide binding]; other site 387093001217 heme binding pocket [chemical binding]; other site 387093001218 NADPH binding site [chemical binding]; other site 387093001219 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 387093001220 Ferritin-like domain; Region: Ferritin; pfam00210 387093001221 heme binding site [chemical binding]; other site 387093001222 ferroxidase pore; other site 387093001223 ferroxidase diiron center [ion binding]; other site 387093001224 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 387093001225 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 387093001226 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 387093001227 ketol-acid reductoisomerase; Provisional; Region: PRK05479 387093001228 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093001229 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 387093001230 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 387093001231 NodB motif; other site 387093001232 putative active site [active] 387093001233 putative catalytic site [active] 387093001234 Zn binding site [ion binding]; other site 387093001235 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 387093001236 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 387093001237 catalytic residues [active] 387093001238 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 387093001239 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 387093001240 NlpC/P60 family; Region: NLPC_P60; cl11438 387093001241 Sporulation related domain; Region: SPOR; cl10051 387093001242 NlpC/P60 family; Region: NLPC_P60; cl11438 387093001243 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 387093001244 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 387093001245 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 387093001246 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 387093001247 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 387093001248 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 387093001249 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 387093001250 FeS/SAM binding site; other site 387093001251 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 387093001252 putative active site [active] 387093001253 Ap4A binding site [chemical binding]; other site 387093001254 nudix motif; other site 387093001255 putative metal binding site [ion binding]; other site 387093001256 aspartate kinase; Reviewed; Region: PRK06635 387093001257 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 387093001258 putative nucleotide binding site [chemical binding]; other site 387093001259 putative catalytic residues [active] 387093001260 putative Mg ion binding site [ion binding]; other site 387093001261 putative aspartate binding site [chemical binding]; other site 387093001262 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 387093001263 putative allosteric regulatory site; other site 387093001264 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 387093001265 DNA replication regulator; Region: HobA; pfam12163 387093001266 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093001267 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 387093001268 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 387093001269 substrate binding pocket [chemical binding]; other site 387093001270 dimer interface [polypeptide binding]; other site 387093001271 inhibitor binding site; inhibition site 387093001272 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 387093001273 putative active site [active] 387093001274 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 387093001275 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 387093001276 nucleotide binding pocket [chemical binding]; other site 387093001277 K-X-D-G motif; other site 387093001278 catalytic site [active] 387093001279 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 387093001280 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 387093001281 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 387093001282 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 387093001283 Dimer interface [polypeptide binding]; other site 387093001284 BRCT sequence motif; other site 387093001285 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 387093001286 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 387093001287 RNA binding surface [nucleotide binding]; other site 387093001288 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; cl15754 387093001289 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 387093001290 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 387093001291 active site 387093001292 nucleotide binding site [chemical binding]; other site 387093001293 HIGH motif; other site 387093001294 KMSKS motif; other site 387093001295 Riboflavin kinase; Region: Flavokinase; cl03312 387093001296 Response regulator receiver domain; Region: Response_reg; pfam00072 387093001297 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 387093001298 active site 387093001299 phosphorylation site [posttranslational modification] 387093001300 intermolecular recognition site; other site 387093001301 dimerization interface [polypeptide binding]; other site 387093001302 GAF domain; Region: GAF_2; pfam13185 387093001303 GAF domain; Region: GAF; cl15785 387093001304 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 387093001305 PAS domain; Region: PAS_9; pfam13426 387093001306 putative active site [active] 387093001307 heme pocket [chemical binding]; other site 387093001308 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 387093001309 metal binding site [ion binding]; metal-binding site 387093001310 active site 387093001311 I-site; other site 387093001312 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 387093001313 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 387093001314 S-adenosylmethionine binding site [chemical binding]; other site 387093001315 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 387093001316 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 387093001317 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 387093001318 dimer interface [polypeptide binding]; other site 387093001319 phosphorylation site [posttranslational modification] 387093001320 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 387093001321 ATP binding site [chemical binding]; other site 387093001322 Mg2+ binding site [ion binding]; other site 387093001323 G-X-G motif; other site 387093001324 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093001325 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 387093001326 active site 387093001327 phosphorylation site [posttranslational modification] 387093001328 intermolecular recognition site; other site 387093001329 dimerization interface [polypeptide binding]; other site 387093001330 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 387093001331 DNA binding site [nucleotide binding] 387093001332 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 387093001333 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 387093001334 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 387093001335 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 387093001336 shikimate binding site; other site 387093001337 NAD(P) binding site [chemical binding]; other site 387093001338 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 387093001339 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 387093001340 chorismate binding enzyme; Region: Chorismate_bind; cl10555 387093001341 Sporulation related domain; Region: SPOR; cl10051 387093001342 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 387093001343 Protein export membrane protein; Region: SecD_SecF; cl14618 387093001344 Protein export membrane protein; Region: SecD_SecF; cl14618 387093001345 Domain of unknown function (DUF1882); Region: DUF1882; pfam08966 387093001346 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 387093001347 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 387093001348 dimer interface [polypeptide binding]; other site 387093001349 glycine-pyridoxal phosphate binding site [chemical binding]; other site 387093001350 active site 387093001351 folate binding site [chemical binding]; other site 387093001352 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 387093001353 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 387093001354 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 387093001355 Transglycosylase SLT domain; Region: SLT_2; pfam13406 387093001356 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 387093001357 N-acetyl-D-glucosamine binding site [chemical binding]; other site 387093001358 catalytic residue [active] 387093001359 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 387093001360 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 387093001361 dimer interface [polypeptide binding]; other site 387093001362 putative anticodon binding site; other site 387093001363 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 387093001364 motif 1; other site 387093001365 active site 387093001366 motif 2; other site 387093001367 motif 3; other site 387093001368 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 387093001369 metal binding site 2 [ion binding]; metal-binding site 387093001370 putative DNA binding helix; other site 387093001371 metal binding site 1 [ion binding]; metal-binding site 387093001372 dimer interface [polypeptide binding]; other site 387093001373 structural Zn2+ binding site [ion binding]; other site 387093001374 Colicin V production protein; Region: Colicin_V; cl00567 387093001375 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 387093001376 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093001377 Walker A motif; other site 387093001378 ATP binding site [chemical binding]; other site 387093001379 Walker B motif; other site 387093001380 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 387093001381 ArsC family; Region: ArsC; pfam03960 387093001382 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 387093001383 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 387093001384 active site residue [active] 387093001385 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 387093001386 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 387093001387 metal binding site [ion binding]; metal-binding site 387093001388 dimer interface [polypeptide binding]; other site 387093001389 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 387093001390 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 387093001391 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 387093001392 dimer interface [polypeptide binding]; other site 387093001393 phosphorylation site [posttranslational modification] 387093001394 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 387093001395 ATP binding site [chemical binding]; other site 387093001396 Mg2+ binding site [ion binding]; other site 387093001397 G-X-G motif; other site 387093001398 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 387093001399 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 387093001400 active site 387093001401 metal binding site [ion binding]; metal-binding site 387093001402 DsrE/DsrF-like family; Region: DrsE; cl00672 387093001403 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093001404 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 387093001405 active site 387093001406 phosphorylation site [posttranslational modification] 387093001407 intermolecular recognition site; other site 387093001408 dimerization interface [polypeptide binding]; other site 387093001409 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 387093001410 DNA binding site [nucleotide binding] 387093001411 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 387093001412 dimer interface [polypeptide binding]; other site 387093001413 phosphorylation site [posttranslational modification] 387093001414 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 387093001415 ATP binding site [chemical binding]; other site 387093001416 Mg2+ binding site [ion binding]; other site 387093001417 G-X-G motif; other site 387093001418 Cytochrome c; Region: Cytochrom_C; cl11414 387093001419 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 387093001420 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 387093001421 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 387093001422 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 387093001423 active site 387093001424 metal binding site [ion binding]; metal-binding site 387093001425 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 387093001426 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 387093001427 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 387093001428 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 387093001429 DsrE/DsrF-like family; Region: DrsE; cl00672 387093001430 tetrathionate reductase subunit B; Provisional; Region: PRK14993 387093001431 4Fe-4S binding domain; Region: Fer4; cl02805 387093001432 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 387093001433 Polysulphide reductase, NrfD; Region: NrfD; cl01295 387093001434 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 387093001435 molybdopterin cofactor binding site; other site 387093001436 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 387093001437 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 387093001438 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 387093001439 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 387093001440 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 387093001441 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 387093001442 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 387093001443 Malic enzyme, N-terminal domain; Region: malic; pfam00390 387093001444 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 387093001445 putative NAD(P) binding site [chemical binding]; other site 387093001446 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 387093001447 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093001448 G1 box; other site 387093001449 GTP/Mg2+ binding site [chemical binding]; other site 387093001450 G2 box; other site 387093001451 Switch I region; other site 387093001452 G3 box; other site 387093001453 Switch II region; other site 387093001454 G4 box; other site 387093001455 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 387093001456 G5 box; other site 387093001457 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 387093001458 tetramer interfaces [polypeptide binding]; other site 387093001459 binuclear metal-binding site [ion binding]; other site 387093001460 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 387093001461 ATP sulphurylase; Region: sopT; TIGR00339 387093001462 active site 387093001463 nucleotide binding site [chemical binding]; other site 387093001464 HIGH motif; other site 387093001465 KMSKS motif; other site 387093001466 Response regulator receiver domain; Region: Response_reg; pfam00072 387093001467 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 387093001468 active site 387093001469 phosphorylation site [posttranslational modification] 387093001470 intermolecular recognition site; other site 387093001471 dimerization interface [polypeptide binding]; other site 387093001472 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 387093001473 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 387093001474 substrate binding site; other site 387093001475 dimer interface; other site 387093001476 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 387093001477 homotrimer interaction site [polypeptide binding]; other site 387093001478 zinc binding site [ion binding]; other site 387093001479 CDP-binding sites; other site 387093001480 antiporter inner membrane protein; Provisional; Region: PRK11670 387093001481 Domain of unknown function DUF59; Region: DUF59; cl00941 387093001482 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 387093001483 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 387093001484 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 387093001485 THF binding site; other site 387093001486 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 387093001487 substrate binding site [chemical binding]; other site 387093001488 THF binding site; other site 387093001489 zinc-binding site [ion binding]; other site 387093001490 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 387093001491 ThiC-associated domain; Region: ThiC-associated; pfam13667 387093001492 ThiC family; Region: ThiC; cl08031 387093001493 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 387093001494 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 387093001495 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 387093001496 thiS-thiF/thiG interaction site; other site 387093001497 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 387093001498 ThiS interaction site; other site 387093001499 putative active site [active] 387093001500 tetramer interface [polypeptide binding]; other site 387093001501 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 387093001502 thiamine phosphate binding site [chemical binding]; other site 387093001503 active site 387093001504 pyrophosphate binding site [ion binding]; other site 387093001505 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 387093001506 dimer interface [polypeptide binding]; other site 387093001507 substrate binding site [chemical binding]; other site 387093001508 ATP binding site [chemical binding]; other site 387093001509 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 387093001510 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 387093001511 N-terminal plug; other site 387093001512 ligand-binding site [chemical binding]; other site 387093001513 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 387093001514 Phosphotransferase enzyme family; Region: APH; pfam01636 387093001515 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 387093001516 active site 387093001517 ATP binding site [chemical binding]; other site 387093001518 substrate binding site [chemical binding]; other site 387093001519 dimer interface [polypeptide binding]; other site 387093001520 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 387093001521 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 387093001522 glutaminase active site [active] 387093001523 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 387093001524 dimer interface [polypeptide binding]; other site 387093001525 active site 387093001526 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 387093001527 dimer interface [polypeptide binding]; other site 387093001528 active site 387093001529 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 387093001530 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 387093001531 metal binding triad; other site 387093001532 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 387093001533 ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; Region: ACT_UUR-ACR-like; cd04873 387093001534 hypothetical protein; Provisional; Region: PRK08444 387093001535 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 387093001536 FeS/SAM binding site; other site 387093001537 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 387093001538 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 387093001539 glutamine binding [chemical binding]; other site 387093001540 catalytic triad [active] 387093001541 ATP citrate (pro-S)-lyase; Region: PLN02235 387093001542 ATP-grasp domain; Region: ATP-grasp_4; cl03087 387093001543 ATP citrate (pro-S)-lyase; Region: PLN02522 387093001544 CoA-ligase; Region: Ligase_CoA; cl02894 387093001545 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 387093001546 active site 387093001547 oxalacetate binding site [chemical binding]; other site 387093001548 citrylCoA binding site [chemical binding]; other site 387093001549 coenzyme A binding site [chemical binding]; other site 387093001550 catalytic triad [active] 387093001551 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 387093001552 dimer interface [polypeptide binding]; other site 387093001553 Alkaline phosphatase homologues; Region: alkPPc; smart00098 387093001554 active site 387093001555 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 387093001556 argininosuccinate lyase; Provisional; Region: PRK00855 387093001557 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 387093001558 active sites [active] 387093001559 tetramer interface [polypeptide binding]; other site 387093001560 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 387093001561 nucleotide binding site/active site [active] 387093001562 HIT family signature motif; other site 387093001563 catalytic residue [active] 387093001564 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 387093001565 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 387093001566 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 387093001567 dimer interface [polypeptide binding]; other site 387093001568 motif 1; other site 387093001569 active site 387093001570 motif 2; other site 387093001571 motif 3; other site 387093001572 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 387093001573 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 387093001574 putative tRNA-binding site [nucleotide binding]; other site 387093001575 B3/4 domain; Region: B3_4; cl11458 387093001576 tRNA synthetase B5 domain; Region: B5; cl08394 387093001577 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 387093001578 dimer interface [polypeptide binding]; other site 387093001579 motif 1; other site 387093001580 motif 3; other site 387093001581 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 387093001582 LytB protein; Region: LYTB; cl00507 387093001583 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 387093001584 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 387093001585 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 387093001586 hinge; other site 387093001587 active site 387093001588 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 387093001589 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 387093001590 RNA binding site [nucleotide binding]; other site 387093001591 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 387093001592 RNA binding site [nucleotide binding]; other site 387093001593 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 387093001594 RNA binding site [nucleotide binding]; other site 387093001595 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 387093001596 RNA binding site [nucleotide binding]; other site 387093001597 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 387093001598 RNA binding site [nucleotide binding]; other site 387093001599 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 387093001600 RNA binding site [nucleotide binding]; other site 387093001601 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 387093001602 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093001603 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 387093001604 putative L-serine binding site [chemical binding]; other site 387093001605 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 387093001606 HlyD family secretion protein; Region: HlyD; pfam00529 387093001607 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093001608 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093001609 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 387093001610 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 387093001611 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 387093001612 elongation factor P; Validated; Region: PRK00529 387093001613 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 387093001614 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 387093001615 RNA binding site [nucleotide binding]; other site 387093001616 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 387093001617 RNA binding site [nucleotide binding]; other site 387093001618 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 387093001619 metal binding site [ion binding]; metal-binding site 387093001620 active site 387093001621 I-site; other site 387093001622 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 387093001623 enoyl-CoA hydratase; Validated; Region: PRK08788 387093001624 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 387093001625 substrate binding site [chemical binding]; other site 387093001626 oxyanion hole (OAH) forming residues; other site 387093001627 trimer interface [polypeptide binding]; other site 387093001628 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 387093001629 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093001630 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 387093001631 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 387093001632 DJ-1 family protein; Region: not_thiJ; TIGR01383 387093001633 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 387093001634 conserved cys residue [active] 387093001635 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 387093001636 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 387093001637 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 387093001638 generic binding surface I; other site 387093001639 generic binding surface II; other site 387093001640 bZIP transcription factor; Region: bZIP_1; cl02576 387093001641 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 387093001642 malate dehydrogenase; Reviewed; Region: PRK06223 387093001643 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 387093001644 NAD(P) binding site [chemical binding]; other site 387093001645 dimer interface [polypeptide binding]; other site 387093001646 tetramer (dimer of dimers) interface [polypeptide binding]; other site 387093001647 substrate binding site [chemical binding]; other site 387093001648 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 387093001649 dimer interface [polypeptide binding]; other site 387093001650 malate dehydrogenase; Reviewed; Region: PRK06223 387093001651 NAD(P) binding site [chemical binding]; other site 387093001652 tetramer (dimer of dimers) interface [polypeptide binding]; other site 387093001653 substrate binding site [chemical binding]; other site 387093001654 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 387093001655 Fumarase C-terminus; Region: Fumerase_C; cl00795 387093001656 fumarate hydratase; Reviewed; Region: fumC; PRK00485 387093001657 Class II fumarases; Region: Fumarase_classII; cd01362 387093001658 active site 387093001659 tetramer interface [polypeptide binding]; other site 387093001660 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 387093001661 ATP-grasp domain; Region: ATP-grasp_4; cl03087 387093001662 CoA-ligase; Region: Ligase_CoA; cl02894 387093001663 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 387093001664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093001665 CoA-ligase; Region: Ligase_CoA; cl02894 387093001666 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 387093001667 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 387093001668 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 387093001669 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 387093001670 dimer interface [polypeptide binding]; other site 387093001671 PYR/PP interface [polypeptide binding]; other site 387093001672 TPP binding site [chemical binding]; other site 387093001673 substrate binding site [chemical binding]; other site 387093001674 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 387093001675 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 387093001676 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 387093001677 TPP-binding site [chemical binding]; other site 387093001678 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 387093001679 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 387093001680 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 387093001681 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093001682 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 387093001683 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 387093001684 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 387093001685 ATP binding site [chemical binding]; other site 387093001686 putative Mg++ binding site [ion binding]; other site 387093001687 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 387093001688 nucleotide binding region [chemical binding]; other site 387093001689 ATP-binding site [chemical binding]; other site 387093001690 Pseudogene. Similar to transposase IS200-like. This CDS appears to have a frameshift mutation following codon 67. 387093001691 Probable gene remnant. Similar to the N-terminal region of Pelodictyon phaeoclathratiforme BU-1 transposase IS200-like (147 aa) PphaDRAFT_0876. 387093001692 Probable gene remnant. Similar to the C-terminal region of Pelodictyon phaeoclathratiforme BU-1 transposase IS200-like (147 aa) PphaDRAFT_0876. 387093001693 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 387093001694 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093001695 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 387093001696 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 387093001697 molybdopterin cofactor binding site; other site 387093001698 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 387093001699 molybdopterin cofactor binding site; other site 387093001700 Domain of unknown function DUF20; Region: UPF0118; pfam01594 387093001701 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 387093001702 acetylornithine aminotransferase; Provisional; Region: PRK02627 387093001703 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 387093001704 inhibitor-cofactor binding pocket; inhibition site 387093001705 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093001706 catalytic residue [active] 387093001707 Outer membrane efflux protein; Region: OEP; pfam02321 387093001708 Uncharacterized conserved protein [Function unknown]; Region: COG1565 387093001709 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 387093001710 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 387093001711 DNA repair protein RadA; Provisional; Region: PRK11823 387093001712 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093001713 Walker A motif; other site 387093001714 ATP binding site [chemical binding]; other site 387093001715 Walker B motif; other site 387093001716 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 387093001717 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 387093001718 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 387093001719 P loop; other site 387093001720 GTP binding site [chemical binding]; other site 387093001721 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 387093001722 catalytic residues [active] 387093001723 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 387093001724 phosphodiesterase; Provisional; Region: PRK12704 387093001725 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 387093001726 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 387093001727 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 387093001728 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 387093001729 active site 387093001730 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 387093001731 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 387093001732 S-adenosylmethionine binding site [chemical binding]; other site 387093001733 ABC transporter ATPase component; Reviewed; Region: PRK11147 387093001734 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093001735 Walker A/P-loop; other site 387093001736 ATP binding site [chemical binding]; other site 387093001737 Q-loop/lid; other site 387093001738 ABC transporter signature motif; other site 387093001739 Walker B; other site 387093001740 D-loop; other site 387093001741 H-loop/switch region; other site 387093001742 ABC transporter; Region: ABC_tran_2; pfam12848 387093001743 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 387093001744 Peptidase family M48; Region: Peptidase_M48; cl12018 387093001745 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 387093001746 CoenzymeA binding site [chemical binding]; other site 387093001747 subunit interaction site [polypeptide binding]; other site 387093001748 PHB binding site; other site 387093001749 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 387093001750 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 387093001751 S-adenosylmethionine binding site [chemical binding]; other site 387093001752 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 387093001753 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 387093001754 putative active site [active] 387093001755 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 387093001756 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 387093001757 active site 387093001758 metal binding site [ion binding]; metal-binding site 387093001759 Sel1 repeat; Region: Sel1; cl02723 387093001760 Sel1 repeat; Region: Sel1; cl02723 387093001761 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 387093001762 hypothetical protein; Provisional; Region: PRK04081 387093001763 cell division protein FtsZ; Validated; Region: PRK09330 387093001764 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 387093001765 nucleotide binding site [chemical binding]; other site 387093001766 SulA interaction site; other site 387093001767 cell division protein FtsA; Region: ftsA; TIGR01174 387093001768 Cell division protein FtsA; Region: FtsA; cl11496 387093001769 Cell division protein FtsA; Region: FtsA; cl11496 387093001770 SurA N-terminal domain; Region: SurA_N_3; cl07813 387093001771 PPIC-type PPIASE domain; Region: Rotamase; cl08278 387093001772 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 387093001773 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 387093001774 inhibitor-cofactor binding pocket; inhibition site 387093001775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093001776 catalytic residue [active] 387093001777 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 387093001778 Sel1 repeat; Region: Sel1; cl02723 387093001779 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 387093001780 active site 387093001781 phosphorylation site [posttranslational modification] 387093001782 intermolecular recognition site; other site 387093001783 dimerization interface [polypeptide binding]; other site 387093001784 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 387093001785 metal binding site [ion binding]; metal-binding site 387093001786 active site 387093001787 I-site; other site 387093001788 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 387093001789 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 387093001790 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 387093001791 ATP binding site [chemical binding]; other site 387093001792 Mg2+ binding site [ion binding]; other site 387093001793 G-X-G motif; other site 387093001794 Response regulator receiver domain; Region: Response_reg; pfam00072 387093001795 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 387093001796 active site 387093001797 phosphorylation site [posttranslational modification] 387093001798 intermolecular recognition site; other site 387093001799 dimerization interface [polypeptide binding]; other site 387093001800 PAS domain; Region: PAS_9; pfam13426 387093001801 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 387093001802 putative active site [active] 387093001803 heme pocket [chemical binding]; other site 387093001804 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 387093001805 catalytic core [active] 387093001806 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 387093001807 active site 387093001808 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 387093001809 phosphorylation site [posttranslational modification] 387093001810 intermolecular recognition site; other site 387093001811 dimerization interface [polypeptide binding]; other site 387093001812 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 387093001813 dimer interface [polypeptide binding]; other site 387093001814 phosphorylation site [posttranslational modification] 387093001815 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 387093001816 ATP binding site [chemical binding]; other site 387093001817 Mg2+ binding site [ion binding]; other site 387093001818 G-X-G motif; other site 387093001819 Response regulator receiver domain; Region: Response_reg; pfam00072 387093001820 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 387093001821 active site 387093001822 phosphorylation site [posttranslational modification] 387093001823 intermolecular recognition site; other site 387093001824 dimerization interface [polypeptide binding]; other site 387093001825 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 387093001826 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 387093001827 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 387093001828 ATP binding site [chemical binding]; other site 387093001829 Mg2+ binding site [ion binding]; other site 387093001830 G-X-G motif; other site 387093001831 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 387093001832 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 387093001833 active site 387093001834 phosphorylation site [posttranslational modification] 387093001835 intermolecular recognition site; other site 387093001836 dimerization interface [polypeptide binding]; other site 387093001837 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 387093001838 DNA binding residues [nucleotide binding] 387093001839 dimerization interface [polypeptide binding]; other site 387093001840 Response regulator receiver domain; Region: Response_reg; pfam00072 387093001841 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 387093001842 active site 387093001843 phosphorylation site [posttranslational modification] 387093001844 intermolecular recognition site; other site 387093001845 dimerization interface [polypeptide binding]; other site 387093001846 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 387093001847 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 387093001848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093001849 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 387093001850 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 387093001851 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 387093001852 domain interfaces; other site 387093001853 active site 387093001854 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 387093001855 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 387093001856 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 387093001857 prolyl-tRNA synthetase; Provisional; Region: PRK09194 387093001858 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 387093001859 dimer interface [polypeptide binding]; other site 387093001860 motif 1; other site 387093001861 active site 387093001862 motif 2; other site 387093001863 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 387093001864 putative deacylase active site [active] 387093001865 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 387093001866 active site 387093001867 motif 3; other site 387093001868 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 387093001869 anticodon binding site; other site 387093001870 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 387093001871 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 387093001872 tRNA; other site 387093001873 putative tRNA binding site [nucleotide binding]; other site 387093001874 putative NADP binding site [chemical binding]; other site 387093001875 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 387093001876 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 387093001877 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 387093001878 substrate binding pocket [chemical binding]; other site 387093001879 chain length determination region; other site 387093001880 substrate-Mg2+ binding site; other site 387093001881 catalytic residues [active] 387093001882 aspartate-rich region 1; other site 387093001883 active site lid residues [active] 387093001884 aspartate-rich region 2; other site 387093001885 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 387093001886 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 387093001887 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 387093001888 FAD binding site [chemical binding]; other site 387093001889 phosphoserine phosphatase SerB; Region: serB; TIGR00338 387093001890 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 387093001891 motif II; other site 387093001892 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 387093001893 S-adenosylmethionine binding site [chemical binding]; other site 387093001894 Methanothermobacter thermautotrophicus Mth212-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Mth212-like_AP-endo; cd09085 387093001895 active site 387093001896 phosphate binding site A [ion binding]; other site 387093001897 putative catalytic site [active] 387093001898 DNA binding site [nucleotide binding] 387093001899 metal binding site A [ion binding]; metal-binding site 387093001900 putative AP binding site [nucleotide binding]; other site 387093001901 putative metal binding site B [ion binding]; other site 387093001902 phosphate binding site B [ion binding]; other site 387093001903 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 387093001904 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 387093001905 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 387093001906 YceI-like domain; Region: YceI; cl01001 387093001907 Domain of unknown function DUF302; Region: DUF302; cl01364 387093001908 GTP-binding protein YchF; Reviewed; Region: PRK09601 387093001909 YchF GTPase; Region: YchF; cd01900 387093001910 G1 box; other site 387093001911 GTP/Mg2+ binding site [chemical binding]; other site 387093001912 Switch I region; other site 387093001913 G2 box; other site 387093001914 Switch II region; other site 387093001915 G3 box; other site 387093001916 G4 box; other site 387093001917 G5 box; other site 387093001918 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 387093001919 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 387093001920 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 387093001921 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093001922 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 387093001923 multifunctional aminopeptidase A; Provisional; Region: PRK00913 387093001924 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 387093001925 interface (dimer of trimers) [polypeptide binding]; other site 387093001926 Substrate-binding/catalytic site; other site 387093001927 Zn-binding sites [ion binding]; other site 387093001928 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 387093001929 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 387093001930 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 387093001931 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093001932 catalytic residue [active] 387093001933 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 387093001934 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 387093001935 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 387093001936 putative active site [active] 387093001937 putative metal binding site [ion binding]; other site 387093001938 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 387093001939 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 387093001940 Catalytic site [active] 387093001941 signal peptidase I; Provisional; Region: PRK10861 387093001942 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 387093001943 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 387093001944 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 387093001945 active site 387093001946 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 387093001947 heme-binding site [chemical binding]; other site 387093001948 Phosphate-starvation-inducible E; Region: PsiE; cl01264 387093001949 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 387093001950 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 387093001951 active site 387093001952 putative substrate binding region [chemical binding]; other site 387093001953 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 387093001954 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 387093001955 Catalytic site [active] 387093001956 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 387093001957 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14183 387093001958 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 387093001959 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 387093001960 homodimer interface [polypeptide binding]; other site 387093001961 NADP binding site [chemical binding]; other site 387093001962 substrate binding site [chemical binding]; other site 387093001963 Cytochrome c; Region: Cytochrom_C; cl11414 387093001964 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 387093001965 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 387093001966 DNA-binding site [nucleotide binding]; DNA binding site 387093001967 RNA-binding motif; other site 387093001968 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 387093001969 structural tetrad; other site 387093001970 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 387093001971 Haemolysin-III related; Region: HlyIII; cl03831 387093001972 NAD synthetase; Reviewed; Region: nadE; PRK02628 387093001973 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 387093001974 multimer interface [polypeptide binding]; other site 387093001975 active site 387093001976 catalytic triad [active] 387093001977 protein interface 1 [polypeptide binding]; other site 387093001978 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 387093001979 homodimer interface [polypeptide binding]; other site 387093001980 NAD binding pocket [chemical binding]; other site 387093001981 ATP binding pocket [chemical binding]; other site 387093001982 Mg binding site [ion binding]; other site 387093001983 active-site loop [active] 387093001984 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 387093001985 active site 387093001986 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 387093001987 active site 387093001988 dimer interface [polypeptide binding]; other site 387093001989 Transposase domain (DUF772); Region: DUF772; cl15789 387093001990 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 387093001991 Transposase domain (DUF772); Region: DUF772; cl15789 387093001992 Transposase domain (DUF772); Region: DUF772; cl15789 387093001993 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 387093001994 thioredoxin 2; Provisional; Region: PRK10996 387093001995 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 387093001996 catalytic residues [active] 387093001997 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093001998 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 387093001999 active site 387093002000 phosphorylation site [posttranslational modification] 387093002001 intermolecular recognition site; other site 387093002002 dimerization interface [polypeptide binding]; other site 387093002003 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 387093002004 DNA binding site [nucleotide binding] 387093002005 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 387093002006 dimer interface [polypeptide binding]; other site 387093002007 phosphorylation site [posttranslational modification] 387093002008 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 387093002009 ATP binding site [chemical binding]; other site 387093002010 Mg2+ binding site [ion binding]; other site 387093002011 G-X-G motif; other site 387093002012 Cytochrome c; Region: Cytochrom_C; cl11414 387093002013 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 387093002014 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 387093002015 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093002016 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 387093002017 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 387093002018 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 387093002019 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 387093002020 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 387093002021 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 387093002022 Protein of unknown function (DUF434); Region: DUF434; cl04460 387093002023 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 387093002024 substrate binding site [chemical binding]; other site 387093002025 Protein of unknown function DUF72; Region: DUF72; cl00777 387093002026 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 387093002027 putative active site [active] 387093002028 Sel1 repeat; Region: Sel1; cl02723 387093002029 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 387093002030 Predicted transcriptional regulator [Transcription]; Region: COG2944 387093002031 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 387093002032 Predicted transcriptional regulator [Transcription]; Region: COG2944 387093002033 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 387093002034 non-specific DNA binding site [nucleotide binding]; other site 387093002035 salt bridge; other site 387093002036 sequence-specific DNA binding site [nucleotide binding]; other site 387093002037 ORF6N domain; Region: ORF6N; pfam10543 387093002038 Predicted transcriptional regulator [Transcription]; Region: COG4190 387093002039 Helix-turn-helix domains; Region: HTH; cl00088 387093002040 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 387093002041 putative DNA binding site [nucleotide binding]; other site 387093002042 dimerization interface [polypeptide binding]; other site 387093002043 putative Zn2+ binding site [ion binding]; other site 387093002044 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 387093002045 MgtE intracellular N domain; Region: MgtE_N; cl15244 387093002046 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 387093002047 Divalent cation transporter; Region: MgtE; cl00786 387093002048 Domain of unknown function DUF21; Region: DUF21; pfam01595 387093002049 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 387093002050 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 387093002051 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 387093002052 ATP binding site [chemical binding]; other site 387093002053 Mg++ binding site [ion binding]; other site 387093002054 motif III; other site 387093002055 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 387093002056 nucleotide binding region [chemical binding]; other site 387093002057 ATP-binding site [chemical binding]; other site 387093002058 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 387093002059 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 387093002060 active site 387093002061 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 387093002062 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 387093002063 NAD binding site [chemical binding]; other site 387093002064 homotetramer interface [polypeptide binding]; other site 387093002065 homodimer interface [polypeptide binding]; other site 387093002066 substrate binding site [chemical binding]; other site 387093002067 active site 387093002068 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 387093002069 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 387093002070 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 387093002071 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 387093002072 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 387093002073 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 387093002074 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 387093002075 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 387093002076 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 387093002077 RNA binding site [nucleotide binding]; other site 387093002078 Protein of unknown function (DUF3680); Region: DUF3680; cl02189 387093002079 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 387093002080 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 387093002081 active site 387093002082 metal binding site [ion binding]; metal-binding site 387093002083 DNA binding site [nucleotide binding] 387093002084 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 387093002085 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093002086 Walker A/P-loop; other site 387093002087 ATP binding site [chemical binding]; other site 387093002088 Q-loop/lid; other site 387093002089 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093002090 ABC transporter signature motif; other site 387093002091 Walker B; other site 387093002092 D-loop; other site 387093002093 H-loop/switch region; other site 387093002094 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 387093002095 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 387093002096 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 387093002097 AAA domain; Region: AAA_13; pfam13166 387093002098 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093002099 Walker B; other site 387093002100 D-loop; other site 387093002101 H-loop/switch region; other site 387093002102 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 387093002103 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 387093002104 Fic/DOC family; Region: Fic; cl00960 387093002105 Transposase IS200 like; Region: Y1_Tnp; cl00848 387093002106 Helix-turn-helix domains; Region: HTH; cl00088 387093002107 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 387093002108 Fic/DOC family; Region: Fic; cl00960 387093002109 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 387093002110 RF-1 domain; Region: RF-1; cl02875 387093002111 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 387093002112 Uncharacterized conserved protein [Function unknown]; Region: COG2461 387093002113 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 387093002114 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 387093002115 pseudouridine synthase; Region: TIGR00093 387093002116 active site 387093002117 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 387093002118 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093002119 Probable gene remnant. Similar to the N- and C-terminal region of Desulfovibrio desulfuricans G20 ISPg7, transposase (438 aa) Dde_2849. This CDS appears to have a frameshift mutation following codon 230. 387093002120 Transposase, Mutator family; Region: Transposase_mut; pfam00872 387093002121 MULE transposase domain; Region: MULE; pfam10551 387093002122 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 387093002123 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 387093002124 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 387093002125 peroxidase; Provisional; Region: PRK15000 387093002126 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 387093002127 dimer interface [polypeptide binding]; other site 387093002128 decamer (pentamer of dimers) interface [polypeptide binding]; other site 387093002129 catalytic triad [active] 387093002130 peroxidatic and resolving cysteines [active] 387093002131 ferric uptake regulator; Provisional; Region: fur; PRK09462 387093002132 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 387093002133 metal binding site 2 [ion binding]; metal-binding site 387093002134 putative DNA binding helix; other site 387093002135 metal binding site 1 [ion binding]; metal-binding site 387093002136 dimer interface [polypeptide binding]; other site 387093002137 structural Zn2+ binding site [ion binding]; other site 387093002138 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 387093002139 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 387093002140 catalytic residue [active] 387093002141 RIP metalloprotease RseP; Region: TIGR00054 387093002142 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 387093002143 active site 387093002144 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 387093002145 protein binding site [polypeptide binding]; other site 387093002146 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 387093002147 putative substrate binding region [chemical binding]; other site 387093002148 Domain of unknown function (DUF4310); Region: DUF4310; cl11918 387093002149 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 387093002150 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 387093002151 dimer interface [polypeptide binding]; other site 387093002152 phosphorylation site [posttranslational modification] 387093002153 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 387093002154 ATP binding site [chemical binding]; other site 387093002155 Mg2+ binding site [ion binding]; other site 387093002156 G-X-G motif; other site 387093002157 Response regulator receiver domain; Region: Response_reg; pfam00072 387093002158 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 387093002159 active site 387093002160 phosphorylation site [posttranslational modification] 387093002161 intermolecular recognition site; other site 387093002162 dimerization interface [polypeptide binding]; other site 387093002163 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 387093002164 Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_c; cd01145 387093002165 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 387093002166 putative ligand binding site [chemical binding]; other site 387093002167 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 387093002168 multicopper oxidase; Provisional; Region: PRK10965 387093002169 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 387093002170 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 387093002171 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 387093002172 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 387093002173 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093002174 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 387093002175 active site 387093002176 phosphorylation site [posttranslational modification] 387093002177 intermolecular recognition site; other site 387093002178 dimerization interface [polypeptide binding]; other site 387093002179 Helix-turn-helix domains; Region: HTH; cl00088 387093002180 DNA binding site [nucleotide binding] 387093002181 Cytochrome c; Region: Cytochrom_C; cl11414 387093002182 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 387093002183 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093002184 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 387093002185 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093002186 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 387093002187 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 387093002188 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 387093002189 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 387093002190 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 387093002191 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387093002192 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 387093002193 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 387093002194 ATP binding site [chemical binding]; other site 387093002195 Mg2+ binding site [ion binding]; other site 387093002196 G-X-G motif; other site 387093002197 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093002198 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 387093002199 active site 387093002200 phosphorylation site [posttranslational modification] 387093002201 intermolecular recognition site; other site 387093002202 dimerization interface [polypeptide binding]; other site 387093002203 Helix-turn-helix domains; Region: HTH; cl00088 387093002204 DNA binding site [nucleotide binding] 387093002205 Short C-terminal domain; Region: SHOCT; cl01373 387093002206 Cytochrome c; Region: Cytochrom_C; cl11414 387093002207 Predicted permease; Region: DUF318; pfam03773 387093002208 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 387093002209 dimerization interface [polypeptide binding]; other site 387093002210 putative DNA binding site [nucleotide binding]; other site 387093002211 putative Zn2+ binding site [ion binding]; other site 387093002212 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 387093002213 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 387093002214 ATP binding site [chemical binding]; other site 387093002215 Mg2+ binding site [ion binding]; other site 387093002216 G-X-G motif; other site 387093002217 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093002218 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 387093002219 active site 387093002220 phosphorylation site [posttranslational modification] 387093002221 intermolecular recognition site; other site 387093002222 dimerization interface [polypeptide binding]; other site 387093002223 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 387093002224 DNA binding site [nucleotide binding] 387093002225 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 387093002226 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 387093002227 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 387093002228 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387093002229 multicopper oxidase; Provisional; Region: PRK10965 387093002230 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 387093002231 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 387093002232 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 387093002233 Methyltransferase domain; Region: Methyltransf_31; pfam13847 387093002234 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 387093002235 S-adenosylmethionine binding site [chemical binding]; other site 387093002236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093002237 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 387093002238 active site residue [active] 387093002239 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 387093002240 dimerization interface [polypeptide binding]; other site 387093002241 putative DNA binding site [nucleotide binding]; other site 387093002242 putative Zn2+ binding site [ion binding]; other site 387093002243 Domain of unknown function DUF302; Region: DUF302; cl01364 387093002244 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 387093002245 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 387093002246 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 387093002247 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 387093002248 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 387093002249 outer membrane porin, OprD family; Region: OprD; pfam03573 387093002250 FeoA domain; Region: FeoA; cl00838 387093002251 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 387093002252 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 387093002253 G1 box; other site 387093002254 GTP/Mg2+ binding site [chemical binding]; other site 387093002255 Switch I region; other site 387093002256 G2 box; other site 387093002257 G3 box; other site 387093002258 Switch II region; other site 387093002259 G4 box; other site 387093002260 G5 box; other site 387093002261 Nucleoside recognition; Region: Gate; cl00486 387093002262 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 387093002263 Nucleoside recognition; Region: Gate; cl00486 387093002264 outer membrane porin, OprD family; Region: OprD; pfam03573 387093002265 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 387093002266 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 387093002267 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 387093002268 putative NAD(P) binding site [chemical binding]; other site 387093002269 active site 387093002270 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 387093002271 dihydrodipicolinate synthase; Region: dapA; TIGR00674 387093002272 dimer interface [polypeptide binding]; other site 387093002273 active site 387093002274 catalytic residue [active] 387093002275 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 387093002276 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 387093002277 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 387093002278 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 387093002279 quinone interaction residues [chemical binding]; other site 387093002280 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 387093002281 active site 387093002282 catalytic residues [active] 387093002283 FMN binding site [chemical binding]; other site 387093002284 substrate binding site [chemical binding]; other site 387093002285 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 387093002286 active site 387093002287 NTP binding site [chemical binding]; other site 387093002288 metal binding triad [ion binding]; metal-binding site 387093002289 antibiotic binding site [chemical binding]; other site 387093002290 Protein of unknown function DUF86; Region: DUF86; cl01031 387093002291 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 387093002292 Domain of unknown function (DUF4424); Region: DUF4424; pfam14415 387093002293 YARHG domain; Region: YARHG; pfam13308 387093002294 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 387093002295 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 387093002296 active site 387093002297 HIGH motif; other site 387093002298 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 387093002299 KMSKS motif; other site 387093002300 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 387093002301 integral membrane protein MviN; Region: mviN; TIGR01695 387093002302 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 387093002303 RuvA N terminal domain; Region: RuvA_N; pfam01330 387093002304 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 387093002305 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 387093002306 secondary substrate binding site; other site 387093002307 primary substrate binding site; other site 387093002308 inhibition loop; other site 387093002309 dimerization interface [polypeptide binding]; other site 387093002310 NlpC/P60 family; Region: NLPC_P60; cl11438 387093002311 flavoprotein, HI0933 family; Region: TIGR00275 387093002312 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093002313 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 387093002314 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 387093002315 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 387093002316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 387093002317 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 387093002318 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 387093002319 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 387093002320 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 387093002321 DNA repair protein RecN; Region: recN; TIGR00634 387093002322 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 387093002323 ligand binding site [chemical binding]; other site 387093002324 Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases); Region: Rab; cd00154 387093002325 Rab subfamily motif 1 (RabSF1); other site 387093002326 G1 box; other site 387093002327 GTP/Mg2+ binding site [chemical binding]; other site 387093002328 Rab subfamily motif 2 (RabSF2); other site 387093002329 Switch I region; other site 387093002330 G2 box; other site 387093002331 effector interaction site; other site 387093002332 GDI interaction site; other site 387093002333 Rab family motif 1 (RabF1); other site 387093002334 GEF interaction site [polypeptide binding]; other site 387093002335 Rab family motif 2 (RabF2); other site 387093002336 G3 box; other site 387093002337 Switch II region; other site 387093002338 Rab family motif 3 (RabF3); other site 387093002339 Rab family motif 4 (RabF4); other site 387093002340 Rab family motif 5 (RabF5); other site 387093002341 Rab subfamily motif 3 (RabSF3); other site 387093002342 G4 box; other site 387093002343 G5 box; other site 387093002344 Rab subfamily motif 4 (RabSF4); other site 387093002345 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 387093002346 metal binding site [ion binding]; metal-binding site 387093002347 active site 387093002348 I-site; other site 387093002349 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 387093002350 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 387093002351 DctM-like transporters; Region: DctM; pfam06808 387093002352 lipid kinase; Reviewed; Region: PRK13054 387093002353 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 387093002354 Domain of unknown function DUF20; Region: UPF0118; pfam01594 387093002355 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 387093002356 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 387093002357 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 387093002358 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 387093002359 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 387093002360 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 387093002361 NADH dehydrogenase; Region: NADHdh; cl00469 387093002362 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 387093002363 4Fe-4S binding domain; Region: Fer4; cl02805 387093002364 4Fe-4S binding domain; Region: Fer4; cl02805 387093002365 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 387093002366 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 387093002367 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 387093002368 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 387093002369 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 387093002370 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 387093002371 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 387093002372 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00196 387093002373 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 387093002374 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 387093002375 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 387093002376 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 387093002377 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 387093002378 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 387093002379 catalytic residues [active] 387093002380 adenine deaminase; Region: ade; TIGR01178 387093002381 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 387093002382 active site 387093002383 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 387093002384 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 387093002385 NMT1-like family; Region: NMT1_2; cl15260 387093002386 NMT1/THI5 like; Region: NMT1; pfam09084 387093002387 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 387093002388 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 387093002389 substrate binding pocket [chemical binding]; other site 387093002390 membrane-bound complex binding site; other site 387093002391 hinge residues; other site 387093002392 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 387093002393 metal binding site [ion binding]; metal-binding site 387093002394 active site 387093002395 I-site; other site 387093002396 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 387093002397 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 387093002398 AAA domain; Region: AAA_33; pfam13671 387093002399 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 387093002400 ATP-binding site [chemical binding]; other site 387093002401 Gluconate-6-phosphate binding site [chemical binding]; other site 387093002402 5-oxoprolinase; Region: PLN02666 387093002403 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 387093002404 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 387093002405 Bacterial Ig-like domain; Region: Big_5; cl01012 387093002406 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 387093002407 putative active site [active] 387093002408 putative metal binding site [ion binding]; other site 387093002409 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 387093002410 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 387093002411 active site 387093002412 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 387093002413 anti sigma factor interaction site; other site 387093002414 regulatory phosphorylation site [posttranslational modification]; other site 387093002415 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 387093002416 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 387093002417 Cache domain; Region: Cache_1; pfam02743 387093002418 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 387093002419 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 387093002420 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 387093002421 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 387093002422 Integrase core domain; Region: rve; cl01316 387093002423 Transposase, Mutator family; Region: Transposase_mut; pfam00872 387093002424 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 387093002425 AMP-binding enzyme; Region: AMP-binding; cl15778 387093002426 AMP-binding enzyme; Region: AMP-binding; cl15778 387093002427 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 387093002428 Predicted amidohydrolase [General function prediction only]; Region: COG0388 387093002429 putative active site [active] 387093002430 catalytic triad [active] 387093002431 putative dimer interface [polypeptide binding]; other site 387093002432 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 387093002433 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 387093002434 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093002435 homodimer interface [polypeptide binding]; other site 387093002436 catalytic residue [active] 387093002437 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 387093002438 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 387093002439 active site 387093002440 homodimer interface [polypeptide binding]; other site 387093002441 homotetramer interface [polypeptide binding]; other site 387093002442 Histidine carboxylase PI chain; Region: HDC; cl03540 387093002443 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 387093002444 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 387093002445 active site 387093002446 catalytic triad [active] 387093002447 dimer interface [polypeptide binding]; other site 387093002448 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 387093002449 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 387093002450 Imelysin; Region: Peptidase_M75; cl09159 387093002451 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 387093002452 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 387093002453 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 387093002454 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 387093002455 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 387093002456 Peptidase family C69; Region: Peptidase_C69; pfam03577 387093002457 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 387093002458 outer membrane porin, OprD family; Region: OprD; pfam03573 387093002459 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 387093002460 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 387093002461 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 387093002462 active site 387093002463 metal binding site [ion binding]; metal-binding site 387093002464 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 387093002465 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 387093002466 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 387093002467 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 387093002468 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 387093002469 dimer interface [polypeptide binding]; other site 387093002470 conserved gate region; other site 387093002471 putative PBP binding loops; other site 387093002472 ABC-ATPase subunit interface; other site 387093002473 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 387093002474 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 387093002475 dimer interface [polypeptide binding]; other site 387093002476 conserved gate region; other site 387093002477 putative PBP binding loops; other site 387093002478 ABC-ATPase subunit interface; other site 387093002479 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 387093002480 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 387093002481 Walker A/P-loop; other site 387093002482 ATP binding site [chemical binding]; other site 387093002483 Q-loop/lid; other site 387093002484 ABC transporter signature motif; other site 387093002485 Walker B; other site 387093002486 D-loop; other site 387093002487 H-loop/switch region; other site 387093002488 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 387093002489 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 387093002490 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 387093002491 Walker A/P-loop; other site 387093002492 ATP binding site [chemical binding]; other site 387093002493 Q-loop/lid; other site 387093002494 ABC transporter signature motif; other site 387093002495 Walker B; other site 387093002496 D-loop; other site 387093002497 H-loop/switch region; other site 387093002498 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 387093002499 Membrane transport protein; Region: Mem_trans; cl09117 387093002500 MoxR-like ATPases [General function prediction only]; Region: COG0714 387093002501 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 387093002502 Walker A motif; other site 387093002503 ATP binding site [chemical binding]; other site 387093002504 Walker B motif; other site 387093002505 arginine finger; other site 387093002506 Phosphotransferase enzyme family; Region: APH; pfam01636 387093002507 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 387093002508 active site 387093002509 ATP binding site [chemical binding]; other site 387093002510 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 387093002511 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 387093002512 catalytic residues [active] 387093002513 Glutaminase; Region: Glutaminase; cl00907 387093002514 outer membrane porin, OprD family; Region: OprD; pfam03573 387093002515 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 387093002516 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 387093002517 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 387093002518 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 387093002519 hypothetical protein; Provisional; Region: PRK10220 387093002520 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 387093002521 PhnA protein; Region: PhnA; pfam03831 387093002522 Recombination protein O N terminal; Region: RecO_N; cl15812 387093002523 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 387093002524 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 387093002525 active site 387093002526 dimer interface [polypeptide binding]; other site 387093002527 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 387093002528 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 387093002529 active site 387093002530 FMN binding site [chemical binding]; other site 387093002531 substrate binding site [chemical binding]; other site 387093002532 3Fe-4S cluster binding site [ion binding]; other site 387093002533 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 387093002534 domain interface; other site 387093002535 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 387093002536 active site 387093002537 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 387093002538 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 387093002539 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 387093002540 Cupin domain; Region: Cupin_2; cl09118 387093002541 Haem-binding domain; Region: Haem_bd; pfam14376 387093002542 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 387093002543 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 387093002544 ATP binding site [chemical binding]; other site 387093002545 putative Mg++ binding site [ion binding]; other site 387093002546 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 387093002547 nucleotide binding region [chemical binding]; other site 387093002548 ATP-binding site [chemical binding]; other site 387093002549 Helicase associated domain (HA2); Region: HA2; cl04503 387093002550 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 387093002551 Cytochrome c; Region: Cytochrom_C; cl11414 387093002552 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 387093002553 PIF1-like helicase; Region: PIF1; pfam05970 387093002554 Walker A motif; other site 387093002555 ATP binding site [chemical binding]; other site 387093002556 Walker B motif; other site 387093002557 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 387093002558 Helicase; Region: Herpes_Helicase; pfam02689 387093002559 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 387093002560 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 387093002561 Phospholipid methyltransferase; Region: PEMT; cl00763 387093002562 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 387093002563 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 387093002564 active site residue [active] 387093002565 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 387093002566 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 387093002567 dimer interface [polypeptide binding]; other site 387093002568 FMN binding site [chemical binding]; other site 387093002569 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 387093002570 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 387093002571 DNA-binding site [nucleotide binding]; DNA binding site 387093002572 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 387093002573 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093002574 homodimer interface [polypeptide binding]; other site 387093002575 catalytic residue [active] 387093002576 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 387093002577 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 387093002578 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 387093002579 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 387093002580 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 387093002581 Isochorismatase family; Region: Isochorismatase; pfam00857 387093002582 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 387093002583 catalytic triad [active] 387093002584 conserved cis-peptide bond; other site 387093002585 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 387093002586 S-adenosylmethionine binding site [chemical binding]; other site 387093002587 Methyltransferase domain; Region: Methyltransf_31; pfam13847 387093002588 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 387093002589 S-adenosylmethionine binding site [chemical binding]; other site 387093002590 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093002591 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 387093002592 Helix-turn-helix domains; Region: HTH; cl00088 387093002593 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 387093002594 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 387093002595 catalytic triad [active] 387093002596 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 387093002597 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 387093002598 Helix-turn-helix domains; Region: HTH; cl00088 387093002599 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 387093002600 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 387093002601 Coenzyme A binding pocket [chemical binding]; other site 387093002602 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 387093002603 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 387093002604 CoenzymeA binding site [chemical binding]; other site 387093002605 subunit interaction site [polypeptide binding]; other site 387093002606 PHB binding site; other site 387093002607 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 387093002608 Helix-turn-helix domains; Region: HTH; cl00088 387093002609 WHG domain; Region: WHG; pfam13305 387093002610 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 387093002611 Protein export membrane protein; Region: SecD_SecF; cl14618 387093002612 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 387093002613 Helix-turn-helix domains; Region: HTH; cl00088 387093002614 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 387093002615 CoenzymeA binding site [chemical binding]; other site 387093002616 subunit interaction site [polypeptide binding]; other site 387093002617 PHB binding site; other site 387093002618 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 387093002619 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 387093002620 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093002621 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 387093002622 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 387093002623 DNA binding site [nucleotide binding] 387093002624 active site 387093002625 EcsC protein family; Region: EcsC; pfam12787 387093002626 Pseudogene. Similar to HAD-superfamily subfamily IIA hydrolase. This CDS appears to have a frameshift mutation following codon 111. 387093002627 Probable gene remnant. Similar to the N-terminal region of Alkalilimnicola ehrlichei MLHE-1 HAD-superfamily subfamily IIA hydrolase (260 aa) MlgDRAFT_0103. 387093002628 Probable gene remnant. Similar to the C-terminal region of Alkalilimnicola ehrlichei MLHE-1 HAD-superfamily subfamily IIA hydrolase (260 aa) MlgDRAFT_0103. 387093002629 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 387093002630 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 387093002631 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 387093002632 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 387093002633 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 387093002634 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 387093002635 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 387093002636 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 387093002637 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 387093002638 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 387093002639 dimer interface [polypeptide binding]; other site 387093002640 conserved gate region; other site 387093002641 putative PBP binding loops; other site 387093002642 ABC-ATPase subunit interface; other site 387093002643 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 387093002644 ABC transporter; Region: ABC_tran; pfam00005 387093002645 Q-loop/lid; other site 387093002646 ABC transporter signature motif; other site 387093002647 Walker B; other site 387093002648 D-loop; other site 387093002649 H-loop/switch region; other site 387093002650 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 387093002651 substrate binding site [chemical binding]; other site 387093002652 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 387093002653 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 387093002654 active site 387093002655 NTP binding site [chemical binding]; other site 387093002656 metal binding triad [ion binding]; metal-binding site 387093002657 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 387093002658 Cache domain; Region: Cache_1; pfam02743 387093002659 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 387093002660 dimer interface [polypeptide binding]; other site 387093002661 phosphorylation site [posttranslational modification] 387093002662 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 387093002663 ATP binding site [chemical binding]; other site 387093002664 Mg2+ binding site [ion binding]; other site 387093002665 G-X-G motif; other site 387093002666 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 387093002667 lipoyl synthase; Provisional; Region: PRK05481 387093002668 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 387093002669 FeS/SAM binding site; other site 387093002670 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 387093002671 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 387093002672 acetyl-CoA synthetase; Provisional; Region: PRK04319 387093002673 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 387093002674 AMP-binding enzyme; Region: AMP-binding; cl15778 387093002675 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 387093002676 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 387093002677 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 387093002678 E3 interaction surface; other site 387093002679 lipoyl attachment site [posttranslational modification]; other site 387093002680 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 387093002681 Phosphopantetheine attachment site; Region: PP-binding; cl09936 387093002682 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 387093002683 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 387093002684 tetramer interface [polypeptide binding]; other site 387093002685 TPP-binding site [chemical binding]; other site 387093002686 heterodimer interface [polypeptide binding]; other site 387093002687 phosphorylation loop region [posttranslational modification] 387093002688 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 387093002689 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 387093002690 alpha subunit interface [polypeptide binding]; other site 387093002691 TPP binding site [chemical binding]; other site 387093002692 heterodimer interface [polypeptide binding]; other site 387093002693 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 387093002694 GxGYxY sequence motif in domain of unknown function; Region: GxGYxYP; pfam14323 387093002695 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 387093002696 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 387093002697 transmembrane helices; other site 387093002698 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 387093002699 transmembrane helices; other site 387093002700 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 387093002701 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 387093002702 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 387093002703 metal binding site [ion binding]; metal-binding site 387093002704 active site 387093002705 I-site; other site 387093002706 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 387093002707 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 387093002708 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 387093002709 FeS/SAM binding site; other site 387093002710 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 387093002711 putative ligand binding pocket/active site [active] 387093002712 putative metal binding site [ion binding]; other site 387093002713 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093002714 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 387093002715 Transglycosylase SLT domain; Region: SLT_2; pfam13406 387093002716 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 387093002717 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 387093002718 Barrier to autointegration factor; Region: BAF; cl03803 387093002719 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_prok; cd01062 387093002720 B1 nucleotide binding pocket [chemical binding]; other site 387093002721 B2 nucleotide binding pocket [chemical binding]; other site 387093002722 CAS motifs; other site 387093002723 active site 387093002724 PIF1-like helicase; Region: PIF1; pfam05970 387093002725 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093002726 Helicase; Region: Herpes_Helicase; pfam02689 387093002727 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 387093002728 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 387093002729 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 387093002730 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 387093002731 active site 387093002732 Paraquat-inducible protein A; Region: PqiA; pfam04403 387093002733 Paraquat-inducible protein A; Region: PqiA; pfam04403 387093002734 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 387093002735 mce related protein; Region: MCE; pfam02470 387093002736 mce related protein; Region: MCE; pfam02470 387093002737 Protein of unknown function (DUF330); Region: DUF330; cl01135 387093002738 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 387093002739 DEAD-like helicases superfamily; Region: DEXDc; smart00487 387093002740 ATP binding site [chemical binding]; other site 387093002741 Mg++ binding site [ion binding]; other site 387093002742 motif III; other site 387093002743 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 387093002744 nucleotide binding region [chemical binding]; other site 387093002745 ATP-binding site [chemical binding]; other site 387093002746 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 387093002747 active site 387093002748 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 387093002749 hypothetical protein; Provisional; Region: PRK08609 387093002750 active site 387093002751 primer binding site [nucleotide binding]; other site 387093002752 NTP binding site [chemical binding]; other site 387093002753 metal binding triad [ion binding]; metal-binding site 387093002754 Domain of unknown function DUF59; Region: DUF59; cl00941 387093002755 Fe-S metabolism associated domain; Region: SufE; cl00951 387093002756 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 387093002757 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 387093002758 FeS assembly ATPase SufC; Region: sufC; TIGR01978 387093002759 Walker A/P-loop; other site 387093002760 ATP binding site [chemical binding]; other site 387093002761 Q-loop/lid; other site 387093002762 ABC transporter signature motif; other site 387093002763 Walker B; other site 387093002764 D-loop; other site 387093002765 H-loop/switch region; other site 387093002766 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 387093002767 putative ABC transporter; Region: ycf24; CHL00085 387093002768 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 387093002769 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 387093002770 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 387093002771 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 387093002772 putative active site [active] 387093002773 catalytic site [active] 387093002774 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 387093002775 putative active site [active] 387093002776 catalytic site [active] 387093002777 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 387093002778 dimerization interface [polypeptide binding]; other site 387093002779 putative active site pocket [active] 387093002780 putative catalytic residue [active] 387093002781 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 387093002782 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 387093002783 putative active site [active] 387093002784 catalytic site [active] 387093002785 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 387093002786 putative active site [active] 387093002787 catalytic site [active] 387093002788 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 387093002789 LemA family; Region: LemA; cl00742 387093002790 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 387093002791 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 387093002792 N-acetyl-D-glucosamine binding site [chemical binding]; other site 387093002793 catalytic residue [active] 387093002794 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 387093002795 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 387093002796 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 387093002797 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 387093002798 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 387093002799 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 387093002800 active site 387093002801 dimer interface [polypeptide binding]; other site 387093002802 metal binding site [ion binding]; metal-binding site 387093002803 Mechanosensitive ion channel; Region: MS_channel; pfam00924 387093002804 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 387093002805 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 387093002806 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 387093002807 FeS/SAM binding site; other site 387093002808 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 387093002809 Walker B motif; other site 387093002810 arginine finger; other site 387093002811 Peptidase family M41; Region: Peptidase_M41; pfam01434 387093002812 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 387093002813 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 387093002814 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 387093002815 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 387093002816 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 387093002817 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 387093002818 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 387093002819 Transposase IS200 like; Region: Y1_Tnp; cl00848 387093002820 Helix-turn-helix domains; Region: HTH; cl00088 387093002821 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 387093002822 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 387093002823 Helix-turn-helix domains; Region: HTH; cl00088 387093002824 Transposase IS200 like; Region: Y1_Tnp; cl00848 387093002825 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 387093002826 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093002827 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 387093002828 nucleotide binding region [chemical binding]; other site 387093002829 Superfamily II helicase [General function prediction only]; Region: COG1204 387093002830 ATP-binding site [chemical binding]; other site 387093002831 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 387093002832 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 387093002833 Amino acid permease; Region: AA_permease_2; pfam13520 387093002834 ATP-dependent helicase; Provisional; Region: PRK13767 387093002835 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 387093002836 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 387093002837 amino acid transporter; Region: 2A0306; TIGR00909 387093002838 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 387093002839 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 387093002840 tandem repeat interface [polypeptide binding]; other site 387093002841 oligomer interface [polypeptide binding]; other site 387093002842 active site residues [active] 387093002843 chlorohydrolase; Provisional; Region: PRK08418 387093002844 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 387093002845 active site 387093002846 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 387093002847 trimer interface [polypeptide binding]; other site 387093002848 active site 387093002849 dimer interface [polypeptide binding]; other site 387093002850 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 387093002851 active site 387093002852 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 387093002853 catalytic center binding site [active] 387093002854 ATP binding site [chemical binding]; other site 387093002855 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 387093002856 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093002857 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 387093002858 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 387093002859 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 387093002860 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 387093002861 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 387093002862 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 387093002863 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 387093002864 active site 387093002865 GTP-binding protein LepA; Provisional; Region: PRK05433 387093002866 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 387093002867 G1 box; other site 387093002868 putative GEF interaction site [polypeptide binding]; other site 387093002869 GTP/Mg2+ binding site [chemical binding]; other site 387093002870 Switch I region; other site 387093002871 G2 box; other site 387093002872 G3 box; other site 387093002873 Switch II region; other site 387093002874 G4 box; other site 387093002875 G5 box; other site 387093002876 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 387093002877 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 387093002878 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 387093002879 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 387093002880 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 387093002881 active site 387093002882 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 387093002883 metal binding site [ion binding]; metal-binding site 387093002884 active site 387093002885 I-site; other site 387093002886 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 387093002887 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 387093002888 metal binding site [ion binding]; metal-binding site 387093002889 dimer interface [polypeptide binding]; other site 387093002890 ATP-grasp domain; Region: ATP-grasp_4; cl03087 387093002891 ATP-grasp domain; Region: ATP-grasp_4; cl03087 387093002892 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 387093002893 active site 387093002894 Zn binding site [ion binding]; other site 387093002895 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 387093002896 Interdomain contacts; other site 387093002897 Cytokine receptor motif; other site 387093002898 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 387093002899 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 387093002900 MoxR-like ATPases [General function prediction only]; Region: COG0714 387093002901 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 387093002902 Walker A motif; other site 387093002903 ATP binding site [chemical binding]; other site 387093002904 Walker B motif; other site 387093002905 arginine finger; other site 387093002906 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 387093002907 active site residue [active] 387093002908 hypothetical protein; Provisional; Region: PRK09781; cl08057 387093002909 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 387093002910 ABC-ATPase subunit interface; other site 387093002911 dimer interface [polypeptide binding]; other site 387093002912 putative PBP binding regions; other site 387093002913 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 387093002914 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 387093002915 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 387093002916 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 387093002917 putative metal binding residues [ion binding]; other site 387093002918 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 387093002919 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 387093002920 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 387093002921 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 387093002922 dimer interface [polypeptide binding]; other site 387093002923 phosphorylation site [posttranslational modification] 387093002924 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 387093002925 ATP binding site [chemical binding]; other site 387093002926 Mg2+ binding site [ion binding]; other site 387093002927 G-X-G motif; other site 387093002928 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093002929 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 387093002930 active site 387093002931 phosphorylation site [posttranslational modification] 387093002932 intermolecular recognition site; other site 387093002933 dimerization interface [polypeptide binding]; other site 387093002934 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 387093002935 DNA binding site [nucleotide binding] 387093002936 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 387093002937 YceI-like domain; Region: YceI; cl01001 387093002938 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 387093002939 FtsX-like permease family; Region: FtsX; cl15850 387093002940 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 387093002941 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 387093002942 Walker A/P-loop; other site 387093002943 ATP binding site [chemical binding]; other site 387093002944 Q-loop/lid; other site 387093002945 ABC transporter signature motif; other site 387093002946 Walker B; other site 387093002947 D-loop; other site 387093002948 H-loop/switch region; other site 387093002949 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 387093002950 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 387093002951 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 387093002952 exodeoxyribonuclease X; Provisional; Region: PRK07983 387093002953 active site 387093002954 substrate binding site [chemical binding]; other site 387093002955 catalytic site [active] 387093002956 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 387093002957 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 387093002958 trimerization site [polypeptide binding]; other site 387093002959 active site 387093002960 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 387093002961 Cache domain; Region: Cache_1; pfam02743 387093002962 phosphoglycolate phosphatase; Provisional; Region: PRK13222 387093002963 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 387093002964 active site 387093002965 motif I; other site 387093002966 motif II; other site 387093002967 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 387093002968 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 387093002969 B12 binding site [chemical binding]; other site 387093002970 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cd00245 387093002971 substrate binding site [chemical binding]; other site 387093002972 B12 cofactor binding site [chemical binding]; other site 387093002973 heterodimer (sigma-epsilon) interface [polypeptide binding]; other site 387093002974 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 387093002975 MutL protein; Region: MutL; pfam13941 387093002976 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 387093002977 AMP-binding enzyme; Region: AMP-binding; cl15778 387093002978 Probable gene remnant. Similar to the N-terminal region of Campylobacter lari RM2100 type I restriction-modification enzyme, subunit R HsdR (770 aa) CLA0703. 387093002979 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 387093002980 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 387093002981 Walker A motif; other site 387093002982 ATP binding site [chemical binding]; other site 387093002983 Walker B motif; other site 387093002984 arginine finger; other site 387093002985 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 387093002986 active site 387093002987 catalytic triad [active] 387093002988 Probable gene remnant. Similar to the N-terminal region of Campylobacter jejuni RM1221 type I restriction-modification enzyme, subunit M HsdM (494 aa) CJE1724. 387093002989 Transposase IS200 like; Region: Y1_Tnp; cl00848 387093002990 Protein of unknown function (DUF503); Region: DUF503; cl00669 387093002991 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 387093002992 Uncharacterized conserved protein (DUF2196); Region: DUF2196; cl02044 387093002993 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 387093002994 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 387093002995 Walker A motif; other site 387093002996 ATP binding site [chemical binding]; other site 387093002997 Walker B motif; other site 387093002998 Peptidase family M41; Region: Peptidase_M41; pfam01434 387093002999 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 387093003000 CHAD domain; Region: CHAD; cl10506 387093003001 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 387093003002 active site 387093003003 Photosystem P840 reaction-centre cytochrome c-551; Region: Cytochrome-c551; pfam10643 387093003004 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 387093003005 sulfite oxidase; Provisional; Region: PLN00177 387093003006 Moco binding site; other site 387093003007 metal coordination site [ion binding]; other site 387093003008 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 387093003009 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 387093003010 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 387093003011 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 387093003012 ATP-grasp domain; Region: ATP-grasp_4; cl03087 387093003013 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 387093003014 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 387093003015 ATP-grasp domain; Region: ATP-grasp_4; cl03087 387093003016 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 387093003017 IMP binding site; other site 387093003018 dimer interface [polypeptide binding]; other site 387093003019 partial ornithine binding site; other site 387093003020 rod shape-determining protein MreC; Provisional; Region: PRK13922 387093003021 rod shape-determining protein MreC; Region: MreC; pfam04085 387093003022 rod shape-determining protein MreB; Provisional; Region: PRK13927 387093003023 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 387093003024 ATP binding site [chemical binding]; other site 387093003025 gelsolin binding site; other site 387093003026 profilin binding site; other site 387093003027 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 387093003028 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 387093003029 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 387093003030 Walker A motif; other site 387093003031 ATP binding site [chemical binding]; other site 387093003032 Walker B motif; other site 387093003033 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 387093003034 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 387093003035 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 387093003036 active site 387093003037 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 387093003038 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 387093003039 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 387093003040 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 387093003041 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 387093003042 active site residue [active] 387093003043 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 387093003044 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 387093003045 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 387093003046 active site 387093003047 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 387093003048 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 387093003049 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 387093003050 Phosphate transporter family; Region: PHO4; cl00396 387093003051 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 387093003052 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 387093003053 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093003054 Abortive infection C-terminus; Region: Abi_C; pfam14355 387093003055 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093003056 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 387093003057 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 387093003058 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 387093003059 active site 387093003060 HIGH motif; other site 387093003061 KMSKS motif; other site 387093003062 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 387093003063 tRNA binding surface [nucleotide binding]; other site 387093003064 anticodon binding site; other site 387093003065 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 387093003066 dimer interface [polypeptide binding]; other site 387093003067 putative tRNA-binding site [nucleotide binding]; other site 387093003068 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 387093003069 GIY-YIG motif/motif A; other site 387093003070 putative active site [active] 387093003071 putative metal binding site [ion binding]; other site 387093003072 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 387093003073 AMP-binding enzyme; Region: AMP-binding; cl15778 387093003074 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 387093003075 metal binding site [ion binding]; metal-binding site 387093003076 active site 387093003077 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093003078 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 387093003079 N-acetyl-D-glucosamine binding site [chemical binding]; other site 387093003080 catalytic residue [active] 387093003081 YGGT family; Region: YGGT; cl00508 387093003082 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 387093003083 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 387093003084 active site 387093003085 HIGH motif; other site 387093003086 nucleotide binding site [chemical binding]; other site 387093003087 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 387093003088 active site 387093003089 KMSKS motif; other site 387093003090 glutaminyl-tRNA synthetase/YqeY domain fusion protein; Provisional; Region: PRK14703 387093003091 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 387093003092 active site 387093003093 HIGH motif; other site 387093003094 nucleotide binding site [chemical binding]; other site 387093003095 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 387093003096 KMSKS motif; other site 387093003097 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 387093003098 GatB domain; Region: GatB_Yqey; cl11497 387093003099 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 387093003100 active site residue [active] 387093003101 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 387093003102 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 387093003103 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 387093003104 Protein of unknown function DUF89; Region: DUF89; cl15397 387093003105 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 387093003106 Cache domain; Region: Cache_2; cl07034 387093003107 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 387093003108 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 387093003109 ATP binding site [chemical binding]; other site 387093003110 Mg2+ binding site [ion binding]; other site 387093003111 G-X-G motif; other site 387093003112 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093003113 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 387093003114 active site 387093003115 phosphorylation site [posttranslational modification] 387093003116 intermolecular recognition site; other site 387093003117 dimerization interface [polypeptide binding]; other site 387093003118 Helix-turn-helix domains; Region: HTH; cl00088 387093003119 DNA binding site [nucleotide binding] 387093003120 outer membrane porin, OprD family; Region: OprD; pfam03573 387093003121 Protein of unknown function, DUF485; Region: DUF485; cl01231 387093003122 Sodium:solute symporter family; Region: SSF; cl00456 387093003123 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 387093003124 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 387093003125 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 387093003126 ligand binding site [chemical binding]; other site 387093003127 flexible hinge region; other site 387093003128 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 387093003129 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 387093003130 metal binding triad; other site 387093003131 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 387093003132 active site 387093003133 substrate binding site [chemical binding]; other site 387093003134 catalytic site [active] 387093003135 acetyl-CoA synthetase; Provisional; Region: PRK00174 387093003136 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 387093003137 AMP-binding enzyme; Region: AMP-binding; cl15778 387093003138 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 387093003139 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 387093003140 Fe-S cluster binding site [ion binding]; other site 387093003141 active site 387093003142 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 387093003143 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 387093003144 active site 387093003145 catalytic tetrad [active] 387093003146 Mechanosensitive ion channel; Region: MS_channel; pfam00924 387093003147 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 387093003148 BCCT family transporter; Region: BCCT; cl00569 387093003149 Sulfatase; Region: Sulfatase; cl10460 387093003150 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 387093003151 Helix-turn-helix domains; Region: HTH; cl00088 387093003152 Methyltransferase domain; Region: Methyltransf_31; pfam13847 387093003153 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 387093003154 S-adenosylmethionine binding site [chemical binding]; other site 387093003155 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 387093003156 Protein of unknown function (DUF511); Region: DUF511; cl01114 387093003157 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 387093003158 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 387093003159 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 387093003160 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 387093003161 putative substrate translocation pore; other site 387093003162 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 387093003163 putative acyl-acceptor binding pocket; other site 387093003164 AMP-binding enzyme; Region: AMP-binding; cl15778 387093003165 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 387093003166 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 387093003167 DNA binding residues [nucleotide binding] 387093003168 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 387093003169 S-adenosylmethionine binding site [chemical binding]; other site 387093003170 flavoprotein, HI0933 family; Region: TIGR00275 387093003171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093003172 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093003173 Sulfate transporter family; Region: Sulfate_transp; cl15842 387093003174 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 387093003175 Sulfate transporter family; Region: Sulfate_transp; cl15842 387093003176 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 387093003177 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 387093003178 active site residue [active] 387093003179 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 387093003180 active site 387093003181 zinc binding site [ion binding]; other site 387093003182 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 387093003183 MPT binding site; other site 387093003184 trimer interface [polypeptide binding]; other site 387093003185 short chain dehydrogenase; Validated; Region: PRK06182 387093003186 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 387093003187 NADP binding site [chemical binding]; other site 387093003188 active site 387093003189 steroid binding site; other site 387093003190 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 387093003191 active site 387093003192 nucleophile elbow; other site 387093003193 Phospholipid methyltransferase; Region: PEMT; cl00763 387093003194 Protein of unknown function (DUF819); Region: DUF819; cl02317 387093003195 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 387093003196 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 387093003197 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 387093003198 active site 387093003199 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 387093003200 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 387093003201 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 387093003202 NlpC/P60 family; Region: NLPC_P60; cl11438 387093003203 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; cl15754 387093003204 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 387093003205 putative metal binding site [ion binding]; other site 387093003206 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 387093003207 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 387093003208 nucleoside/Zn binding site; other site 387093003209 dimer interface [polypeptide binding]; other site 387093003210 catalytic motif [active] 387093003211 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093003212 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 387093003213 active site 387093003214 phosphorylation site [posttranslational modification] 387093003215 intermolecular recognition site; other site 387093003216 dimerization interface [polypeptide binding]; other site 387093003217 Helix-turn-helix domains; Region: HTH; cl00088 387093003218 DNA binding site [nucleotide binding] 387093003219 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 387093003220 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 387093003221 dimer interface [polypeptide binding]; other site 387093003222 phosphorylation site [posttranslational modification] 387093003223 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 387093003224 ATP binding site [chemical binding]; other site 387093003225 Mg2+ binding site [ion binding]; other site 387093003226 G-X-G motif; other site 387093003227 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 387093003228 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093003229 Family description; Region: UvrD_C_2; cl15862 387093003230 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 387093003231 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 387093003232 hinge; other site 387093003233 active site 387093003234 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 387093003235 putative active site [active] 387093003236 putative metal binding residues [ion binding]; other site 387093003237 signature motif; other site 387093003238 putative dimer interface [polypeptide binding]; other site 387093003239 putative phosphate binding site [ion binding]; other site 387093003240 Uncharacterized conserved protein [Function unknown]; Region: COG3287 387093003241 FIST N domain; Region: FIST; cl10701 387093003242 FIST C domain; Region: FIST_C; pfam10442 387093003243 putative diguanylate cyclase; Provisional; Region: PRK09776 387093003244 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 387093003245 PAS domain S-box; Region: sensory_box; TIGR00229 387093003246 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 387093003247 putative active site [active] 387093003248 heme pocket [chemical binding]; other site 387093003249 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 387093003250 PAS domain; Region: PAS_9; pfam13426 387093003251 putative active site [active] 387093003252 heme pocket [chemical binding]; other site 387093003253 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 387093003254 metal binding site [ion binding]; metal-binding site 387093003255 active site 387093003256 I-site; other site 387093003257 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 387093003258 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 387093003259 PseudoU_synth_EcTruD: Pseudouridine synthase, TruD family. This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_EcTruD; cd02575 387093003260 Permutation of conserved domain; other site 387093003261 active site 387093003262 Protein required for attachment to host cells; Region: Host_attach; cl02398 387093003263 phosphoglycolate phosphatase; Provisional; Region: PRK13222 387093003264 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387093003265 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 387093003266 motif II; other site 387093003267 3-methyladenine DNA glycosylase; Provisional; Region: PRK13913 387093003268 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 387093003269 minor groove reading motif; other site 387093003270 helix-hairpin-helix signature motif; other site 387093003271 substrate binding pocket [chemical binding]; other site 387093003272 active site 387093003273 thiamine monophosphate kinase; Provisional; Region: PRK05731 387093003274 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 387093003275 ATP binding site [chemical binding]; other site 387093003276 dimerization interface [polypeptide binding]; other site 387093003277 succinate dehydrogenase and fumarate reductase iron-sulfur protein; Region: dhsB; TIGR00384 387093003278 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 387093003279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093003280 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 387093003281 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 387093003282 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 387093003283 4Fe-4S binding domain; Region: Fer4; cl02805 387093003284 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 387093003285 Cysteine-rich domain; Region: CCG; pfam02754 387093003286 Cysteine-rich domain; Region: CCG; pfam02754 387093003287 Haem-binding domain; Region: Haem_bd; pfam14376 387093003288 Superoxide reductase-like (SORL) domain, class II; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_classII; cd03172 387093003289 non-heme iron binding site [ion binding]; other site 387093003290 tetramer interface [polypeptide binding]; other site 387093003291 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 387093003292 metal binding site [ion binding]; metal-binding site 387093003293 active site 387093003294 I-site; other site 387093003295 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 387093003296 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 387093003297 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 387093003298 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 387093003299 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 387093003300 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 387093003301 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 387093003302 E3 interaction surface; other site 387093003303 lipoyl attachment site [posttranslational modification]; other site 387093003304 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 387093003305 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 387093003306 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 387093003307 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 387093003308 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 387093003309 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 387093003310 putative active site; other site 387093003311 catalytic residue [active] 387093003312 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 387093003313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093003314 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 387093003315 enolase; Provisional; Region: eno; PRK00077 387093003316 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 387093003317 dimer interface [polypeptide binding]; other site 387093003318 metal binding site [ion binding]; metal-binding site 387093003319 substrate binding pocket [chemical binding]; other site 387093003320 phosphoenolpyruvate synthase; Validated; Region: PRK06464 387093003321 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 387093003322 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 387093003323 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 387093003324 Probable gene remnant. Similar to the N- and C-terminal region of Desulfovibrio desulfuricans G20 ISPg7, transposase (438 aa) Dde_2849. This CDS appears to have a frameshift mutation following codon 210. 387093003325 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 387093003326 active site 387093003327 TfoX N-terminal domain; Region: TfoX_N; cl01167 387093003328 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 387093003329 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_15; cd07264 387093003330 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 387093003331 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 387093003332 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 387093003333 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 387093003334 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 387093003335 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 387093003336 Coenzyme A binding pocket [chemical binding]; other site 387093003337 Predicted GTPase [General function prediction only]; Region: COG0218 387093003338 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 387093003339 G1 box; other site 387093003340 GTP/Mg2+ binding site [chemical binding]; other site 387093003341 Switch I region; other site 387093003342 G2 box; other site 387093003343 G3 box; other site 387093003344 Switch II region; other site 387093003345 G4 box; other site 387093003346 G5 box; other site 387093003347 OstA-like protein; Region: OstA; cl00844 387093003348 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 387093003349 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 387093003350 active site 387093003351 motif I; other site 387093003352 motif II; other site 387093003353 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 387093003354 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 387093003355 putative active site pocket [active] 387093003356 4-fold oligomerization interface [polypeptide binding]; other site 387093003357 metal binding residues [ion binding]; metal-binding site 387093003358 3-fold/trimer interface [polypeptide binding]; other site 387093003359 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 387093003360 rare lipoprotein A; Region: rlpA; TIGR00413 387093003361 Sporulation related domain; Region: SPOR; cl10051 387093003362 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 387093003363 N-acetyl-D-glucosamine binding site [chemical binding]; other site 387093003364 catalytic residue [active] 387093003365 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 387093003366 putative peptidoglycan binding site; other site 387093003367 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 387093003368 active site 387093003369 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 387093003370 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 387093003371 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093003372 Walker A/P-loop; other site 387093003373 ATP binding site [chemical binding]; other site 387093003374 Q-loop/lid; other site 387093003375 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 387093003376 ABC transporter signature motif; other site 387093003377 Walker B; other site 387093003378 D-loop; other site 387093003379 H-loop/switch region; other site 387093003380 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 387093003381 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 387093003382 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 387093003383 NnrS protein; Region: NnrS; cl01258 387093003384 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 387093003385 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387093003386 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387093003387 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 387093003388 Substrate binding site; other site 387093003389 metal-binding site 387093003390 Phosphotransferase enzyme family; Region: APH; pfam01636 387093003391 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 387093003392 substrate binding site [chemical binding]; other site 387093003393 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 387093003394 Sodium:solute symporter family; Region: SSF; cl00456 387093003395 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 387093003396 amidase catalytic site [active] 387093003397 Zn binding residues [ion binding]; other site 387093003398 substrate binding site [chemical binding]; other site 387093003399 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 387093003400 putative inner membrane protein; Provisional; Region: PRK11099 387093003401 Sulphur transport; Region: Sulf_transp; cl01018 387093003402 Sulphur transport; Region: Sulf_transp; cl01018 387093003403 Sel1 repeat; Region: Sel1; cl02723 387093003404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 387093003405 SEC-C motif; Region: SEC-C; pfam02810 387093003406 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 387093003407 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 387093003408 inhibitor-cofactor binding pocket; inhibition site 387093003409 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093003410 catalytic residue [active] 387093003411 Gram-negative bacterial tonB protein; Region: TonB; cl10048 387093003412 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 387093003413 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 387093003414 Acylphosphatase; Region: Acylphosphatase; cl00551 387093003415 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 387093003416 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 387093003417 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 387093003418 active site 387093003419 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 387093003420 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 387093003421 Ligand Binding Site [chemical binding]; other site 387093003422 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 387093003423 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 387093003424 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 387093003425 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 387093003426 Probable gene remnant. Similar to the N-terminal region of Rhodopseudomonas palustris BisB18 transposase IS200-like (140 aa) RPCDRAFT_4560. 387093003427 glycogen branching enzyme; Provisional; Region: PRK12313 387093003428 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 387093003429 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 387093003430 active site 387093003431 catalytic site [active] 387093003432 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 387093003433 glycogen synthase; Provisional; Region: glgA; PRK00654 387093003434 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 387093003435 ADP-binding pocket [chemical binding]; other site 387093003436 homodimer interface [polypeptide binding]; other site 387093003437 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 387093003438 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 387093003439 glycogen synthase; Provisional; Region: glgA; PRK00654 387093003440 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 387093003441 ADP-binding pocket [chemical binding]; other site 387093003442 homodimer interface [polypeptide binding]; other site 387093003443 ADP-glucose phosphorylase; Region: PLN02643 387093003444 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 387093003445 nucleotide binding site/active site [active] 387093003446 HIT family signature motif; other site 387093003447 catalytic residue [active] 387093003448 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 387093003449 Domain of unknown function (DUF1925); Region: DUF1925; pfam09094 387093003450 Domain of unknown function (DUF1926); Region: DUF1926; pfam09095 387093003451 Alpha-amylase/alpha-mannosidase [Carbohydrate transport and metabolism]; Region: COG1449 387093003452 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 387093003453 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 387093003454 active site 387093003455 Substrate binding site; other site 387093003456 Mg++ binding site; other site 387093003457 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 387093003458 putative trimer interface [polypeptide binding]; other site 387093003459 putative CoA binding site [chemical binding]; other site 387093003460 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 387093003461 GTP-mannose-1-phosphate guanyltransferase (MPG1 transferase), also known as GDP-mannose pyrophosphorylase, is a bifunctional enzyme with both phosphomannose isomerase (PMI) activity and GDP-mannose phosphorylase (GMP) activity. The protein contains an...; Region: MPG1_transferase; cd05805 387093003462 glucose-6-phosphate isomerase; Provisional; Region: PRK03868 387093003463 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 387093003464 active site 387093003465 dimer interface [polypeptide binding]; other site 387093003466 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 387093003467 dimer interface [polypeptide binding]; other site 387093003468 active site 387093003469 phosphoglucomutase; Validated; Region: PRK07564 387093003470 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 387093003471 active site 387093003472 substrate binding site [chemical binding]; other site 387093003473 metal binding site [ion binding]; metal-binding site 387093003474 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 387093003475 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 387093003476 CrcB-like protein; Region: CRCB; cl09114 387093003477 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 387093003478 MarC family integral membrane protein; Region: MarC; cl00919 387093003479 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 387093003480 YfdX protein; Region: YfdX; pfam10938 387093003481 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 387093003482 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 387093003483 dimer interface [polypeptide binding]; other site 387093003484 decamer (pentamer of dimers) interface [polypeptide binding]; other site 387093003485 catalytic triad [active] 387093003486 peroxidatic and resolving cysteines [active] 387093003487 Predicted membrane protein [Function unknown]; Region: COG3174 387093003488 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 387093003489 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093003490 active site 387093003491 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093003492 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 387093003493 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 387093003494 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 387093003495 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 387093003496 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387093003497 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 387093003498 catalytic core [active] 387093003499 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 387093003500 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 387093003501 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 387093003502 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 387093003503 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 387093003504 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 387093003505 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 387093003506 Beta-Casp domain; Region: Beta-Casp; cl12567 387093003507 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 387093003508 helicase 45; Provisional; Region: PTZ00424 387093003509 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 387093003510 ATP binding site [chemical binding]; other site 387093003511 Mg++ binding site [ion binding]; other site 387093003512 motif III; other site 387093003513 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 387093003514 nucleotide binding region [chemical binding]; other site 387093003515 ATP-binding site [chemical binding]; other site 387093003516 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 387093003517 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 387093003518 DHHA2 domain; Region: DHHA2; pfam02833 387093003519 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 387093003520 catalytic residues [active] 387093003521 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 387093003522 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 387093003523 putative active site [active] 387093003524 putative metal binding site [ion binding]; other site 387093003525 Transposase IS200 like; Region: Y1_Tnp; cl00848 387093003526 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 387093003527 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 387093003528 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 387093003529 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 387093003530 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 387093003531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093003532 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 387093003533 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 387093003534 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 387093003535 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 387093003536 Survival protein SurE; Region: SurE; cl00448 387093003537 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 387093003538 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 387093003539 putative ATP binding site [chemical binding]; other site 387093003540 putative substrate interface [chemical binding]; other site 387093003541 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 387093003542 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 387093003543 putative active site [active] 387093003544 putative metal binding site [ion binding]; other site 387093003545 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 387093003546 ResB-like family; Region: ResB; pfam05140 387093003547 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 387093003548 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 387093003549 NifU-like domain; Region: NifU; cl00484 387093003550 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 387093003551 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 387093003552 Phospholipid methyltransferase; Region: PEMT; cl00763 387093003553 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 387093003554 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093003555 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 387093003556 DNA polymerase I; Provisional; Region: PRK05755 387093003557 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 387093003558 active site 387093003559 putative 5' ssDNA interaction site; other site 387093003560 metal binding site 3; metal-binding site 387093003561 metal binding site 1 [ion binding]; metal-binding site 387093003562 metal binding site 2 [ion binding]; metal-binding site 387093003563 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 387093003564 putative DNA binding site [nucleotide binding]; other site 387093003565 putative metal binding site [ion binding]; other site 387093003566 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 387093003567 active site 387093003568 catalytic site [active] 387093003569 substrate binding site [chemical binding]; other site 387093003570 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 387093003571 active site 387093003572 DNA binding site [nucleotide binding] 387093003573 catalytic site [active] 387093003574 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 387093003575 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 387093003576 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 387093003577 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 387093003578 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 387093003579 octamerization interface [polypeptide binding]; other site 387093003580 diferric-oxygen binding site [ion binding]; other site 387093003581 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 387093003582 PAS domain; Region: PAS_9; pfam13426 387093003583 putative active site [active] 387093003584 heme pocket [chemical binding]; other site 387093003585 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 387093003586 metal binding site [ion binding]; metal-binding site 387093003587 active site 387093003588 I-site; other site 387093003589 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 387093003590 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 387093003591 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 387093003592 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 387093003593 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 387093003594 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 387093003595 FMN binding site [chemical binding]; other site 387093003596 active site 387093003597 catalytic residues [active] 387093003598 substrate binding site [chemical binding]; other site 387093003599 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 387093003600 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 387093003601 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 387093003602 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 387093003603 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 387093003604 Predicted membrane protein [Function unknown]; Region: COG2860 387093003605 UPF0126 domain; Region: UPF0126; pfam03458 387093003606 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 387093003607 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 387093003608 Low molecular weight phosphatase family; Region: LMWPc; cd00115 387093003609 active site 387093003610 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 387093003611 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 387093003612 Paraquat-inducible protein A; Region: PqiA; pfam04403 387093003613 Paraquat-inducible protein A; Region: PqiA; pfam04403 387093003614 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 387093003615 mce related protein; Region: MCE; pfam02470 387093003616 mce related protein; Region: MCE; pfam02470 387093003617 mce related protein; Region: MCE; pfam02470 387093003618 Protein of unknown function (DUF330); Region: DUF330; cl01135 387093003619 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 387093003620 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 387093003621 active site 387093003622 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 387093003623 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 387093003624 Ion channel; Region: Ion_trans_2; cl11596 387093003625 Predicted membrane protein [Function unknown]; Region: COG1289 387093003626 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 387093003627 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 387093003628 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 387093003629 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 387093003630 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093003631 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093003632 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 387093003633 PLD-like domain; Region: PLDc_2; pfam13091 387093003634 putative active site [active] 387093003635 catalytic site [active] 387093003636 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 387093003637 PLD-like domain; Region: PLDc_2; pfam13091 387093003638 putative active site [active] 387093003639 catalytic site [active] 387093003640 Protein of unknown function, DUF481; Region: DUF481; cl01213 387093003641 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 387093003642 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 387093003643 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 387093003644 substrate binding site [chemical binding]; other site 387093003645 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 387093003646 substrate binding site [chemical binding]; other site 387093003647 ligand binding site [chemical binding]; other site 387093003648 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 387093003649 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 387093003650 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093003651 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 387093003652 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 387093003653 Flavoprotein; Region: Flavoprotein; cl08021 387093003654 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 387093003655 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 387093003656 active site 387093003657 (T/H)XGH motif; other site 387093003658 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 387093003659 thymidylate kinase; Validated; Region: tmk; PRK00698 387093003660 TMP-binding site; other site 387093003661 ATP-binding site [chemical binding]; other site 387093003662 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 387093003663 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 387093003664 dimer interface [polypeptide binding]; other site 387093003665 motif 1; other site 387093003666 active site 387093003667 motif 2; other site 387093003668 motif 3; other site 387093003669 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 387093003670 anticodon binding site; other site 387093003671 Protein of unknown function (DUF330); Region: DUF330; cl01135 387093003672 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 387093003673 mce related protein; Region: MCE; pfam02470 387093003674 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 387093003675 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 387093003676 Walker A/P-loop; other site 387093003677 ATP binding site [chemical binding]; other site 387093003678 Q-loop/lid; other site 387093003679 ABC transporter signature motif; other site 387093003680 Walker B; other site 387093003681 D-loop; other site 387093003682 H-loop/switch region; other site 387093003683 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 387093003684 anti sigma factor interaction site; other site 387093003685 regulatory phosphorylation site [posttranslational modification]; other site 387093003686 Permease; Region: Permease; cl00510 387093003687 arginine decarboxylase; Provisional; Region: PRK05354 387093003688 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 387093003689 dimer interface [polypeptide binding]; other site 387093003690 active site 387093003691 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 387093003692 catalytic residues [active] 387093003693 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 387093003694 serine O-acetyltransferase; Region: cysE; TIGR01172 387093003695 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 387093003696 trimer interface [polypeptide binding]; other site 387093003697 active site 387093003698 substrate binding site [chemical binding]; other site 387093003699 CoA binding site [chemical binding]; other site 387093003700 aspartate aminotransferase; Provisional; Region: PRK05764 387093003701 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 387093003702 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093003703 homodimer interface [polypeptide binding]; other site 387093003704 catalytic residue [active] 387093003705 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 387093003706 active site 387093003707 nucleophile elbow; other site 387093003708 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 387093003709 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 387093003710 Membrane transport protein; Region: Mem_trans; cl09117 387093003711 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 387093003712 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 387093003713 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 387093003714 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 387093003715 putative active site [active] 387093003716 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 387093003717 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 387093003718 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 387093003719 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 387093003720 FeS/SAM binding site; other site 387093003721 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 387093003722 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 387093003723 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 387093003724 active site 387093003725 HIGH motif; other site 387093003726 nucleotide binding site [chemical binding]; other site 387093003727 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 387093003728 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 387093003729 active site 387093003730 KMSKS motif; other site 387093003731 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 387093003732 tRNA binding surface [nucleotide binding]; other site 387093003733 anticodon binding site; other site 387093003734 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 387093003735 Sel1 repeat; Region: Sel1; cl02723 387093003736 Sel1 repeat; Region: Sel1; cl02723 387093003737 Sel1 repeat; Region: Sel1; cl02723 387093003738 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 387093003739 PAS domain; Region: PAS_9; pfam13426 387093003740 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 387093003741 metal binding site [ion binding]; metal-binding site 387093003742 active site 387093003743 I-site; other site 387093003744 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 387093003745 DNA polymerase IV; Provisional; Region: PRK14133 387093003746 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 387093003747 active site 387093003748 DNA binding site [nucleotide binding] 387093003749 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 387093003750 PAS fold; Region: PAS_3; pfam08447 387093003751 putative active site [active] 387093003752 heme pocket [chemical binding]; other site 387093003753 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 387093003754 PAS domain; Region: PAS_9; pfam13426 387093003755 putative active site [active] 387093003756 heme pocket [chemical binding]; other site 387093003757 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 387093003758 metal binding site [ion binding]; metal-binding site 387093003759 active site 387093003760 I-site; other site 387093003761 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 387093003762 Pseudogene. Similar to transposase, IS4 family. This CDS appears to have two frameshift mutations following codon 79 and 154. 387093003763 Probable gene remnant. Similar to the C-terminal region of Azoarcus sp. EbN1 transposase, IS4 family (364 aa). 387093003764 Probable gene remnant. Similar to the central region of Azoarcus sp. EbN1 transposase, IS4 family (364 aa). 387093003765 Probable gene remnant. Similar to the N-terminal region of Azoarcus sp. EbN1 transposase, IS4 family (364 aa). 387093003766 Low molecular weight phosphatase family; Region: LMWPc; cd00115 387093003767 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 387093003768 active site 387093003769 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 387093003770 putative DNA binding site [nucleotide binding]; other site 387093003771 dimerization interface [polypeptide binding]; other site 387093003772 putative Zn2+ binding site [ion binding]; other site 387093003773 Helix-turn-helix domains; Region: HTH; cl00088 387093003774 arsenical pump membrane protein; Provisional; Region: PRK15445 387093003775 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 387093003776 transmembrane helices; other site 387093003777 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 387093003778 MgtE intracellular N domain; Region: MgtE_N; cl15244 387093003779 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 387093003780 Divalent cation transporter; Region: MgtE; cl00786 387093003781 ATP-grasp domain; Region: ATP-grasp_4; cl03087 387093003782 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 387093003783 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 387093003784 G1 box; other site 387093003785 GTP/Mg2+ binding site [chemical binding]; other site 387093003786 Switch I region; other site 387093003787 G2 box; other site 387093003788 G3 box; other site 387093003789 Switch II region; other site 387093003790 G4 box; other site 387093003791 G5 box; other site 387093003792 Nucleoside recognition; Region: Gate; cl00486 387093003793 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 387093003794 Nucleoside recognition; Region: Gate; cl00486 387093003795 FeoA domain; Region: FeoA; cl00838 387093003796 Predicted permease; Region: DUF318; pfam03773 387093003797 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093003798 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 387093003799 active site 387093003800 phosphorylation site [posttranslational modification] 387093003801 intermolecular recognition site; other site 387093003802 dimerization interface [polypeptide binding]; other site 387093003803 Helix-turn-helix domains; Region: HTH; cl00088 387093003804 DNA binding site [nucleotide binding] 387093003805 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 387093003806 dimer interface [polypeptide binding]; other site 387093003807 phosphorylation site [posttranslational modification] 387093003808 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 387093003809 ATP binding site [chemical binding]; other site 387093003810 Mg2+ binding site [ion binding]; other site 387093003811 G-X-G motif; other site 387093003812 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 387093003813 dinuclear metal binding motif [ion binding]; other site 387093003814 Probable gene remnant. Similar to the C-terminal region of Thiomicrospira denitrificans ATCC 33889 ABC transporter ATP-binding protein (237 aa) Tmden_1364. 387093003815 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 387093003816 dimer interface [polypeptide binding]; other site 387093003817 phosphorylation site [posttranslational modification] 387093003818 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 387093003819 ATP binding site [chemical binding]; other site 387093003820 Mg2+ binding site [ion binding]; other site 387093003821 G-X-G motif; other site 387093003822 Response regulator receiver domain; Region: Response_reg; pfam00072 387093003823 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 387093003824 active site 387093003825 phosphorylation site [posttranslational modification] 387093003826 intermolecular recognition site; other site 387093003827 dimerization interface [polypeptide binding]; other site 387093003828 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 387093003829 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 387093003830 Walker A/P-loop; other site 387093003831 ATP binding site [chemical binding]; other site 387093003832 Q-loop/lid; other site 387093003833 ABC transporter signature motif; other site 387093003834 Walker B; other site 387093003835 D-loop; other site 387093003836 H-loop/switch region; other site 387093003837 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 387093003838 FtsX-like permease family; Region: FtsX; cl15850 387093003839 HlyD family secretion protein; Region: HlyD_2; pfam12700 387093003840 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093003841 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093003842 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 387093003843 voltage-gated potassium channel; Provisional; Region: PRK10537 387093003844 Ion channel; Region: Ion_trans_2; cl11596 387093003845 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 387093003846 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 387093003847 catalytic residues [active] 387093003848 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 387093003849 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 387093003850 Cation efflux family; Region: Cation_efflux; cl00316 387093003851 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 387093003852 Cytochrome c; Region: Cytochrom_C; cl11414 387093003853 Cytochrome c; Region: Cytochrom_C; cl11414 387093003854 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 387093003855 Uncharacterized conserved protein [Function unknown]; Region: COG5361 387093003856 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 387093003857 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 387093003858 Helix-turn-helix domain; Region: HTH_18; pfam12833 387093003859 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 387093003860 Sulfatase; Region: Sulfatase; cl10460 387093003861 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 387093003862 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 387093003863 active site 387093003864 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 387093003865 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 387093003866 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 387093003867 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 387093003868 Predicted permeases [General function prediction only]; Region: COG0701 387093003869 Predicted permease; Region: DUF318; pfam03773 387093003870 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 387093003871 dimer interface [polypeptide binding]; other site 387093003872 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093003873 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 387093003874 active site 387093003875 phosphorylation site [posttranslational modification] 387093003876 intermolecular recognition site; other site 387093003877 dimerization interface [polypeptide binding]; other site 387093003878 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 387093003879 DNA binding site [nucleotide binding] 387093003880 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 387093003881 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 387093003882 ATP binding site [chemical binding]; other site 387093003883 Mg2+ binding site [ion binding]; other site 387093003884 G-X-G motif; other site 387093003885 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 387093003886 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 387093003887 Domain of unknown function (DUF4395); Region: DUF4395; pfam14340 387093003888 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 387093003889 Protein export membrane protein; Region: SecD_SecF; cl14618 387093003890 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 387093003891 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093003892 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093003893 Outer membrane efflux protein; Region: OEP; pfam02321 387093003894 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 387093003895 Helix-turn-helix domains; Region: HTH; cl00088 387093003896 Domain of unknown function DUF302; Region: DUF302; cl01364 387093003897 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 387093003898 active site 387093003899 substrate-binding site [chemical binding]; other site 387093003900 metal-binding site [ion binding] 387093003901 ATP binding site [chemical binding]; other site 387093003902 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 387093003903 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 387093003904 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 387093003905 active site 387093003906 catalytic residues [active] 387093003907 metal binding site [ion binding]; metal-binding site 387093003908 homodimer binding site [polypeptide binding]; other site 387093003909 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 387093003910 carboxyltransferase (CT) interaction site; other site 387093003911 biotinylation site [posttranslational modification]; other site 387093003912 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 387093003913 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 387093003914 DEAD-like helicases superfamily; Region: DEXDc; smart00487 387093003915 ATP binding site [chemical binding]; other site 387093003916 Mg++ binding site [ion binding]; other site 387093003917 motif III; other site 387093003918 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 387093003919 nucleotide binding region [chemical binding]; other site 387093003920 ATP-binding site [chemical binding]; other site 387093003921 Bacitracin resistance protein BacA; Region: BacA; cl00858 387093003922 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 387093003923 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 387093003924 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093003925 Walker A/P-loop; other site 387093003926 ATP binding site [chemical binding]; other site 387093003927 Q-loop/lid; other site 387093003928 ABC transporter signature motif; other site 387093003929 Walker B; other site 387093003930 D-loop; other site 387093003931 H-loop/switch region; other site 387093003932 integron integrase; Region: integrase_gron; TIGR02249 387093003933 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 387093003934 DNA binding site [nucleotide binding] 387093003935 Int/Topo IB signature motif; other site 387093003936 active site 387093003937 Replication initiation factor; Region: Rep_trans; pfam02486 387093003938 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093003939 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 387093003940 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 387093003941 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 387093003942 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 387093003943 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 387093003944 nudix motif; other site 387093003945 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 387093003946 S-adenosylmethionine synthetase; Validated; Region: PRK05250 387093003947 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 387093003948 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 387093003949 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 387093003950 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 387093003951 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 387093003952 FeS/SAM binding site; other site 387093003953 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 387093003954 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 387093003955 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 387093003956 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 387093003957 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 387093003958 FeS/SAM binding site; other site 387093003959 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 387093003960 putative ADP-ribose binding site [chemical binding]; other site 387093003961 putative active site [active] 387093003962 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 387093003963 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 387093003964 Clp amino terminal domain; Region: Clp_N; pfam02861 387093003965 Clp amino terminal domain; Region: Clp_N; pfam02861 387093003966 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 387093003967 Walker A motif; other site 387093003968 ATP binding site [chemical binding]; other site 387093003969 Walker B motif; other site 387093003970 arginine finger; other site 387093003971 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 387093003972 Walker A motif; other site 387093003973 ATP binding site [chemical binding]; other site 387093003974 Walker B motif; other site 387093003975 arginine finger; other site 387093003976 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 387093003977 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 387093003978 C-terminal peptidase (prc); Region: prc; TIGR00225 387093003979 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 387093003980 protein binding site [polypeptide binding]; other site 387093003981 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 387093003982 Catalytic dyad [active] 387093003983 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 387093003984 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 387093003985 ATP binding site [chemical binding]; other site 387093003986 active site 387093003987 substrate binding site [chemical binding]; other site 387093003988 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 387093003989 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 387093003990 putative active site [active] 387093003991 catalytic triad [active] 387093003992 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 387093003993 putative acyl-acceptor binding pocket; other site 387093003994 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 387093003995 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 387093003996 putative dimer interface [polypeptide binding]; other site 387093003997 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 387093003998 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 387093003999 active site 387093004000 FMN binding site [chemical binding]; other site 387093004001 substrate binding site [chemical binding]; other site 387093004002 3Fe-4S cluster binding site [ion binding]; other site 387093004003 DoxX; Region: DoxX; cl00976 387093004004 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 387093004005 active site 387093004006 ADP/pyrophosphate binding site [chemical binding]; other site 387093004007 dimerization interface [polypeptide binding]; other site 387093004008 allosteric effector site; other site 387093004009 fructose-1,6-bisphosphate binding site; other site 387093004010 YceG-like family; Region: YceG; pfam02618 387093004011 proteins similar to Escherichia coli yceG; Region: yceG_like; cl00675 387093004012 dimerization interface [polypeptide binding]; other site 387093004013 Flavin Reductases; Region: FlaRed; cl00801 387093004014 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 387093004015 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093004016 Walker A/P-loop; other site 387093004017 ATP binding site [chemical binding]; other site 387093004018 Q-loop/lid; other site 387093004019 ABC transporter signature motif; other site 387093004020 Walker B; other site 387093004021 D-loop; other site 387093004022 H-loop/switch region; other site 387093004023 ABC transporter; Region: ABC_tran_2; pfam12848 387093004024 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 387093004025 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 387093004026 sulfite oxidase; Provisional; Region: PLN00177 387093004027 Moco binding site; other site 387093004028 metal coordination site [ion binding]; other site 387093004029 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 387093004030 ArsC family; Region: ArsC; pfam03960 387093004031 catalytic residues [active] 387093004032 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 387093004033 PAS domain S-box; Region: sensory_box; TIGR00229 387093004034 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 387093004035 metal binding site [ion binding]; metal-binding site 387093004036 active site 387093004037 I-site; other site 387093004038 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 387093004039 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 387093004040 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 387093004041 PAS domain S-box; Region: sensory_box; TIGR00229 387093004042 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 387093004043 metal binding site [ion binding]; metal-binding site 387093004044 active site 387093004045 I-site; other site 387093004046 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 387093004047 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 387093004048 THUMP domain; Region: THUMP; cl12076 387093004049 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 387093004050 Ligand Binding Site [chemical binding]; other site 387093004051 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 387093004052 active site residue [active] 387093004053 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 387093004054 RmuC family; Region: RmuC; pfam02646 387093004055 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 387093004056 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 387093004057 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093004058 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 387093004059 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 387093004060 nucleotide binding region [chemical binding]; other site 387093004061 ATP-binding site [chemical binding]; other site 387093004062 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 387093004063 SEC-C motif; Region: SEC-C; pfam02810 387093004064 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 387093004065 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 387093004066 FtsX-like permease family; Region: FtsX; cl15850 387093004067 Protein of unknown function; Region: DUF3971; pfam13116 387093004068 AsmA-like C-terminal region; Region: AsmA_2; cl15864 387093004069 YceG-like family; Region: YceG; pfam02618 387093004070 proteins similar to Escherichia coli yceG; Region: yceG_like; cl00675 387093004071 dimerization interface [polypeptide binding]; other site 387093004072 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 387093004073 active site 387093004074 hypothetical protein; Provisional; Region: PHA02988 387093004075 Catalytic domain of Protein Kinases; Region: PKc; cd00180 387093004076 active site 387093004077 ATP binding site [chemical binding]; other site 387093004078 substrate binding site [chemical binding]; other site 387093004079 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 387093004080 substrate binding site [chemical binding]; other site 387093004081 activation loop (A-loop); other site 387093004082 activation loop (A-loop); other site 387093004083 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 387093004084 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 387093004085 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 387093004086 active site 387093004087 phosphorylation site [posttranslational modification] 387093004088 intermolecular recognition site; other site 387093004089 dimerization interface [polypeptide binding]; other site 387093004090 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 387093004091 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 387093004092 putative substrate translocation pore; other site 387093004093 ferredoxin-nitrite reductase; Reviewed; Region: nirA; PRK09566 387093004094 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 387093004095 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 387093004096 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 387093004097 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 387093004098 Restriction endonuclease; Region: Mrr_cat; cl00516 387093004099 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 387093004100 Transposase IS200 like; Region: Y1_Tnp; cl00848 387093004101 chromosome segregation protein; Provisional; Region: PRK02224 387093004102 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 387093004103 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 387093004104 [4Fe-4S] binding site [ion binding]; other site 387093004105 molybdopterin cofactor binding site; other site 387093004106 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 387093004107 molybdopterin cofactor binding site; other site 387093004108 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 387093004109 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 387093004110 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 387093004111 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 387093004112 hypothetical protein; Validated; Region: PRK09039 387093004113 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 387093004114 ligand binding site [chemical binding]; other site 387093004115 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 387093004116 MutS2 family protein; Region: mutS2; TIGR01069 387093004117 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 387093004118 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 387093004119 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 387093004120 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 387093004121 active site 387093004122 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 387093004123 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 387093004124 dimer interface [polypeptide binding]; other site 387093004125 anticodon binding site; other site 387093004126 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 387093004127 homodimer interface [polypeptide binding]; other site 387093004128 motif 1; other site 387093004129 active site 387093004130 motif 2; other site 387093004131 GAD domain; Region: GAD; pfam02938 387093004132 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 387093004133 active site 387093004134 motif 3; other site 387093004135 adenylate kinase; Reviewed; Region: adk; PRK00279 387093004136 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 387093004137 AMP-binding site [chemical binding]; other site 387093004138 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 387093004139 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 387093004140 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 387093004141 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093004142 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 387093004143 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 387093004144 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 387093004145 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 387093004146 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 387093004147 Family of unknown function (DUF500); Region: DUF500; cl01109 387093004148 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 387093004149 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 387093004150 putative ADP-binding pocket [chemical binding]; other site 387093004151 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cl00630 387093004152 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387093004153 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093004154 short chain dehydrogenase; Provisional; Region: PRK07041 387093004155 NAD(P) binding site [chemical binding]; other site 387093004156 active site 387093004157 FAD binding domain; Region: FAD_binding_4; pfam01565 387093004158 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 387093004159 GtrA-like protein; Region: GtrA; cl00971 387093004160 UbiA prenyltransferase family; Region: UbiA; cl00337 387093004161 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 387093004162 putative active site [active] 387093004163 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 387093004164 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_3; cd08653 387093004165 putative active site [active] 387093004166 putative cosubstrate binding site; other site 387093004167 putative substrate binding site [chemical binding]; other site 387093004168 catalytic site [active] 387093004169 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u5; cd10929 387093004170 putative active site [active] 387093004171 Protein of unknown function (DUF3680); Region: DUF3680; cl02189 387093004172 Protein of unknown function (DUF497); Region: DUF497; cl01108 387093004173 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 387093004174 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 387093004175 putative ADP-binding pocket [chemical binding]; other site 387093004176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093004177 active site 387093004178 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 387093004179 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 387093004180 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 387093004181 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 387093004182 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 387093004183 active site 387093004184 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 387093004185 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 387093004186 Ligand binding site; other site 387093004187 Putative Catalytic site; other site 387093004188 DXD motif; other site 387093004189 GtrA-like protein; Region: GtrA; cl00971 387093004190 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 387093004191 active site 387093004192 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 387093004193 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 387093004194 active site 387093004195 cosubstrate binding site; other site 387093004196 substrate binding site [chemical binding]; other site 387093004197 catalytic site [active] 387093004198 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 387093004199 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 387093004200 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 387093004201 putative active site [active] 387093004202 colanic acid exporter; Provisional; Region: PRK10459 387093004203 MatE; Region: MatE; cl10513 387093004204 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 387093004205 trimer interface [polypeptide binding]; other site 387093004206 active site 387093004207 substrate binding site [chemical binding]; other site 387093004208 CoA binding site [chemical binding]; other site 387093004209 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 387093004210 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 387093004211 trimer interface [polypeptide binding]; other site 387093004212 active site 387093004213 substrate binding site [chemical binding]; other site 387093004214 CoA binding site [chemical binding]; other site 387093004215 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 387093004216 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 387093004217 inhibitor-cofactor binding pocket; inhibition site 387093004218 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093004219 catalytic residue [active] 387093004220 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; cl07929 387093004221 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 387093004222 putative active site [active] 387093004223 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 387093004224 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093004225 NAD(P) binding site [chemical binding]; other site 387093004226 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093004227 active site 387093004228 Pseudogene. Similar to conserved hypothetical protein. This CDS appears to have a frameshift mutation following codon 59. 387093004229 Probable gene remnant. Similar to the C-terminal region of Shewanella amazonensis SB2B conserved hypothetical protein (121 aa) SamaDRAFT_2363. 387093004230 Probable gene remnant. Similar to the N-terminal region of Shewanella amazonensis SB2B conserved hypothetical protein (121 aa) SamaDRAFT_2363. 387093004231 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 387093004232 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 387093004233 substrate binding site; other site 387093004234 tetramer interface; other site 387093004235 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 387093004236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093004237 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 387093004238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093004239 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 387093004240 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 387093004241 Mg++ binding site [ion binding]; other site 387093004242 putative catalytic motif [active] 387093004243 substrate binding site [chemical binding]; other site 387093004244 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 387093004245 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 387093004246 SLBB domain; Region: SLBB; pfam10531 387093004247 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 387093004248 Chain length determinant protein; Region: Wzz; cl15801 387093004249 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 387093004250 Chain length determinant protein; Region: Wzz; cl15801 387093004251 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 387093004252 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093004253 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 387093004254 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 387093004255 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 387093004256 DNA binding residues [nucleotide binding] 387093004257 putative dimer interface [polypeptide binding]; other site 387093004258 chaperone protein DnaJ; Provisional; Region: PRK14299 387093004259 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 387093004260 HSP70 interaction site [polypeptide binding]; other site 387093004261 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 387093004262 substrate binding site [polypeptide binding]; other site 387093004263 dimer interface [polypeptide binding]; other site 387093004264 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 387093004265 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 387093004266 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 387093004267 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 387093004268 purine monophosphate binding site [chemical binding]; other site 387093004269 dimer interface [polypeptide binding]; other site 387093004270 putative catalytic residues [active] 387093004271 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 387093004272 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 387093004273 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 387093004274 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 387093004275 dimerization interface [polypeptide binding]; other site 387093004276 ATP binding site [chemical binding]; other site 387093004277 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 387093004278 dimerization interface [polypeptide binding]; other site 387093004279 ATP binding site [chemical binding]; other site 387093004280 dUTPase; Region: dUTPase_2; pfam08761 387093004281 Sel1 repeat; Region: Sel1; cl02723 387093004282 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 387093004283 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 387093004284 trmE is a tRNA modification GTPase; Region: trmE; cd04164 387093004285 G1 box; other site 387093004286 GTP/Mg2+ binding site [chemical binding]; other site 387093004287 Switch I region; other site 387093004288 G2 box; other site 387093004289 Switch II region; other site 387093004290 G3 box; other site 387093004291 G4 box; other site 387093004292 G5 box; other site 387093004293 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 387093004294 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 387093004295 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 387093004296 G-X-X-G motif; other site 387093004297 membrane protein insertase; Provisional; Region: PRK01318 387093004298 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 387093004299 Ribonuclease P; Region: Ribonuclease_P; cl00457 387093004300 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 387093004301 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 387093004302 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 387093004303 dimer interface [polypeptide binding]; other site 387093004304 active site 387093004305 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 387093004306 catalytic residues [active] 387093004307 substrate binding site [chemical binding]; other site 387093004308 Family of unknown function (DUF490); Region: DUF490; pfam04357 387093004309 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 387093004310 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 387093004311 Surface antigen; Region: Bac_surface_Ag; cl03097 387093004312 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 387093004313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093004314 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 387093004315 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 387093004316 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093004317 Ion transport protein; Region: Ion_trans; pfam00520 387093004318 Ion channel; Region: Ion_trans_2; cl11596 387093004319 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 387093004320 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093004321 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 387093004322 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 387093004323 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 387093004324 GatB domain; Region: GatB_Yqey; cl11497 387093004325 ATP synthase A chain; Region: ATP-synt_A; cl00413 387093004326 Protein of unknown function (DUF2400); Region: DUF2400; cl09884 387093004327 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 387093004328 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 387093004329 Walker A/P-loop; other site 387093004330 ATP binding site [chemical binding]; other site 387093004331 Q-loop/lid; other site 387093004332 ABC transporter signature motif; other site 387093004333 Walker B; other site 387093004334 D-loop; other site 387093004335 H-loop/switch region; other site 387093004336 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 387093004337 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 387093004338 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 387093004339 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 387093004340 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 387093004341 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 387093004342 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 387093004343 putative trimer interface [polypeptide binding]; other site 387093004344 putative CoA binding site [chemical binding]; other site 387093004345 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 387093004346 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 387093004347 N-terminal plug; other site 387093004348 ligand-binding site [chemical binding]; other site 387093004349 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 387093004350 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 387093004351 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 387093004352 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 387093004353 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 387093004354 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 387093004355 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093004356 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 387093004357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093004358 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 387093004359 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 387093004360 active site 387093004361 substrate binding site [chemical binding]; other site 387093004362 catalytic site [active] 387093004363 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 387093004364 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 387093004365 N-acetyl-D-glucosamine binding site [chemical binding]; other site 387093004366 catalytic residue [active] 387093004367 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 387093004368 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 387093004369 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 387093004370 HipA N-terminal domain; Region: Couple_hipA; cl11853 387093004371 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 387093004372 HipA-like N-terminal domain; Region: HipA_N; pfam07805 387093004373 HipA-like C-terminal domain; Region: HipA_C; pfam07804 387093004374 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 387093004375 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 387093004376 FeS/SAM binding site; other site 387093004377 HipA N-terminal domain; Region: Couple_hipA; cl11853 387093004378 HipA-like N-terminal domain; Region: HipA_N; pfam07805 387093004379 HipA-like C-terminal domain; Region: HipA_C; pfam07804 387093004380 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 387093004381 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 387093004382 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 387093004383 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 387093004384 substrate binding site [chemical binding]; other site 387093004385 active site 387093004386 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 387093004387 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 387093004388 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093004389 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 387093004390 DNA gyrase subunit A; Validated; Region: PRK05560 387093004391 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 387093004392 CAP-like domain; other site 387093004393 active site 387093004394 primary dimer interface [polypeptide binding]; other site 387093004395 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 387093004396 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 387093004397 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 387093004398 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 387093004399 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 387093004400 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 387093004401 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 387093004402 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 387093004403 catalytic residues [active] 387093004404 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 387093004405 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 387093004406 Transcriptional regulator; Region: Transcrip_reg; cl00361 387093004407 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 387093004408 putative peptidoglycan binding site; other site 387093004409 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 387093004410 3D domain; Region: 3D; cl01439 387093004411 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 387093004412 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, cyanobacteria; Region: Thr-synth_2; cd01560 387093004413 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093004414 catalytic residue [active] 387093004415 cyclically-permuted mutatrotase family protein; Region: mutarot_permut; TIGR03548 387093004416 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 387093004417 PAS domain; Region: PAS_9; pfam13426 387093004418 putative active site [active] 387093004419 heme pocket [chemical binding]; other site 387093004420 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 387093004421 PAS domain; Region: PAS_9; pfam13426 387093004422 putative active site [active] 387093004423 heme pocket [chemical binding]; other site 387093004424 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 387093004425 metal binding site [ion binding]; metal-binding site 387093004426 active site 387093004427 I-site; other site 387093004428 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 387093004429 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 387093004430 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 387093004431 feedback inhibition sensing region; other site 387093004432 homohexameric interface [polypeptide binding]; other site 387093004433 nucleotide binding site [chemical binding]; other site 387093004434 N-acetyl-L-glutamate binding site [chemical binding]; other site 387093004435 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 387093004436 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 387093004437 dinuclear metal binding motif [ion binding]; other site 387093004438 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 387093004439 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 387093004440 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 387093004441 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 387093004442 CoenzymeA binding site [chemical binding]; other site 387093004443 subunit interaction site [polypeptide binding]; other site 387093004444 PHB binding site; other site 387093004445 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093004446 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 387093004447 DNA binding site [nucleotide binding] 387093004448 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 387093004449 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 387093004450 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 387093004451 Helix-turn-helix domains; Region: HTH; cl00088 387093004452 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 387093004453 Nitrogen regulatory protein P-II; Region: P-II; cl00412 387093004454 Nitrogen regulatory protein P-II; Region: P-II; smart00938 387093004455 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 387093004456 Nitrogen regulatory protein P-II; Region: P-II; cl00412 387093004457 Nitrogen regulatory protein P-II; Region: P-II; smart00938 387093004458 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 387093004459 putative substrate-binding site; other site 387093004460 nickel binding site [ion binding]; other site 387093004461 Family of unknown function (DUF695); Region: DUF695; pfam05117 387093004462 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 387093004463 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 387093004464 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 387093004465 HypX protein, N-terminal hydrolase domain; Region: FMT_core_HypX_N; cd08650 387093004466 putative active site [active] 387093004467 putative substrate binding site [chemical binding]; other site 387093004468 putative cosubstrate binding site; other site 387093004469 catalytic site [active] 387093004470 C-terminal subdomain of the Formyltransferase-like domain found in HypX-like proteins; Region: FMT_C_HypX; cd08701 387093004471 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 387093004472 substrate binding site [chemical binding]; other site 387093004473 oxyanion hole (OAH) forming residues; other site 387093004474 trimer interface [polypeptide binding]; other site 387093004475 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 387093004476 dimerization interface [polypeptide binding]; other site 387093004477 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 387093004478 ATP binding site [chemical binding]; other site 387093004479 Hydrogenase formation hypA family; Region: HypD; cl12072 387093004480 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 387093004481 HupF/HypC family; Region: HupF_HypC; cl00394 387093004482 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093004483 High-affinity nickel-transport protein; Region: NicO; cl00964 387093004484 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 387093004485 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 387093004486 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 387093004487 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 387093004488 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 387093004489 DsrE/DsrF-like family; Region: DrsE; cl00672 387093004490 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 387093004491 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 387093004492 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 387093004493 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 387093004494 DNA binding residues [nucleotide binding] 387093004495 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 387093004496 Acylphosphatase; Region: Acylphosphatase; cl00551 387093004497 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 387093004498 HypF finger; Region: zf-HYPF; pfam07503 387093004499 HypF finger; Region: zf-HYPF; pfam07503 387093004500 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 387093004501 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 387093004502 HypF finger; Region: zf-HYPF; pfam07503 387093004503 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 387093004504 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 387093004505 putative substrate-binding site; other site 387093004506 nickel binding site [ion binding]; other site 387093004507 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 387093004508 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 387093004509 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 387093004510 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 387093004511 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 387093004512 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 387093004513 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 387093004514 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 387093004515 Helix-turn-helix domains; Region: HTH; cl00088 387093004516 Uncharacterized conserved protein [Function unknown]; Region: COG1739 387093004517 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 387093004518 VanZ like family; Region: VanZ; cl01971 387093004519 ferrochelatase; Reviewed; Region: hemH; PRK00035 387093004520 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 387093004521 C-terminal domain interface [polypeptide binding]; other site 387093004522 active site 387093004523 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 387093004524 active site 387093004525 N-terminal domain interface [polypeptide binding]; other site 387093004526 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 387093004527 Ligand binding site; other site 387093004528 oligomer interface; other site 387093004529 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 387093004530 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 387093004531 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 387093004532 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 387093004533 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 387093004534 Walker A motif; other site 387093004535 ATP binding site [chemical binding]; other site 387093004536 Walker B motif; other site 387093004537 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 387093004538 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093004539 Walker A motif; other site 387093004540 ATP binding site [chemical binding]; other site 387093004541 Walker B motif; other site 387093004542 arginine finger; other site 387093004543 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 387093004544 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 387093004545 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 387093004546 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 387093004547 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 387093004548 GTPase Era; Reviewed; Region: era; PRK00089 387093004549 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 387093004550 G1 box; other site 387093004551 GTP/Mg2+ binding site [chemical binding]; other site 387093004552 Switch I region; other site 387093004553 G2 box; other site 387093004554 Switch II region; other site 387093004555 G3 box; other site 387093004556 G4 box; other site 387093004557 G5 box; other site 387093004558 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 387093004559 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 387093004560 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 387093004561 Walker A motif; other site 387093004562 ATP binding site [chemical binding]; other site 387093004563 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093004564 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 387093004565 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 387093004566 active site 387093004567 HslU subunit interaction site [polypeptide binding]; other site 387093004568 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 387093004569 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 387093004570 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 387093004571 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 387093004572 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 387093004573 active site 387093004574 Zn binding site [ion binding]; other site 387093004575 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 387093004576 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 387093004577 ANP binding site [chemical binding]; other site 387093004578 Substrate Binding Site II [chemical binding]; other site 387093004579 Substrate Binding Site I [chemical binding]; other site 387093004580 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 387093004581 catalytic residues [active] 387093004582 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 the...; Region: PNPsynthase; cd00003 387093004583 active site 387093004584 hydrophilic channel; other site 387093004585 dimerization interface [polypeptide binding]; other site 387093004586 catalytic residues [active] 387093004587 active site lid [active] 387093004588 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 387093004589 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 387093004590 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 387093004591 TPR repeat; Region: TPR_11; pfam13414 387093004592 binding surface 387093004593 TPR motif; other site 387093004594 TPR repeat; Region: TPR_11; pfam13414 387093004595 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 387093004596 binding surface 387093004597 TPR motif; other site 387093004598 TPR repeat; Region: TPR_11; pfam13414 387093004599 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 387093004600 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 387093004601 GatB domain; Region: GatB_Yqey; cl11497 387093004602 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 387093004603 active site 387093004604 ribulose/triose binding site [chemical binding]; other site 387093004605 phosphate binding site [ion binding]; other site 387093004606 substrate (anthranilate) binding pocket [chemical binding]; other site 387093004607 product (indole) binding pocket [chemical binding]; other site 387093004608 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 387093004609 Flagellin N-methylase; Region: FliB; cl00497 387093004610 Methyltransferase domain; Region: Methyltransf_31; pfam13847 387093004611 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 387093004612 S-adenosylmethionine binding site [chemical binding]; other site 387093004613 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 387093004614 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 387093004615 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 387093004616 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 387093004617 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093004618 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 387093004619 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 387093004620 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 387093004621 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 387093004622 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 387093004623 putative active site [active] 387093004624 putative substrate binding site [chemical binding]; other site 387093004625 putative cosubstrate binding site; other site 387093004626 catalytic site [active] 387093004627 tartrate dehydrogenase; Provisional; Region: PRK08194 387093004628 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 387093004629 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 387093004630 substrate binding site [chemical binding]; other site 387093004631 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 387093004632 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 387093004633 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 387093004634 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 387093004635 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 387093004636 DNA binding residues [nucleotide binding] 387093004637 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 387093004638 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 387093004639 putative MPT binding site; other site 387093004640 H+ Antiporter protein; Region: 2A0121; TIGR00900 387093004641 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; cl01158 387093004642 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 387093004643 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 387093004644 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 387093004645 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 387093004646 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 387093004647 Probable Catalytic site; other site 387093004648 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093004649 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093004650 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 387093004651 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 387093004652 NADP binding site [chemical binding]; other site 387093004653 active site 387093004654 putative substrate binding site [chemical binding]; other site 387093004655 Cupin domain; Region: Cupin_2; cl09118 387093004656 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 387093004657 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 387093004658 active site 387093004659 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 387093004660 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 387093004661 ligand-binding site [chemical binding]; other site 387093004662 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 387093004663 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 387093004664 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 387093004665 ligand-binding site [chemical binding]; other site 387093004666 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 387093004667 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 387093004668 CysD dimerization site [polypeptide binding]; other site 387093004669 G1 box; other site 387093004670 putative GEF interaction site [polypeptide binding]; other site 387093004671 GTP/Mg2+ binding site [chemical binding]; other site 387093004672 Switch I region; other site 387093004673 G2 box; other site 387093004674 G3 box; other site 387093004675 Switch II region; other site 387093004676 G4 box; other site 387093004677 G5 box; other site 387093004678 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 387093004679 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 387093004680 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 387093004681 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 387093004682 Active Sites [active] 387093004683 Probable gene remnant. Similar to the N-terminal region of Thiomicrospira denitrificans ATCC 33889 UTP--glucose-1-phosphate uridylyltransferase (279 aa) Tmden_1473. 387093004684 Probable gene remnant. Similar to the C-terminal region of Campylobacter jejuni RM1221 cytochrome P450 family protein (453 aa) CJE1598. 387093004685 Probable gene remnant. Similar to the central region of Campylobacter jejuni RM1221 ISEcp1B transposase (420 aa) CJE1598. 387093004686 Transposase IS200 like; Region: Y1_Tnp; cl00848 387093004687 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 387093004688 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 387093004689 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387093004690 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 387093004691 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 387093004692 Probable Catalytic site; other site 387093004693 metal-binding site 387093004694 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 387093004695 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 387093004696 Probable Catalytic site; other site 387093004697 metal-binding site 387093004698 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 387093004699 Probable Catalytic site; other site 387093004700 metal-binding site 387093004701 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 387093004702 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 387093004703 Probable Catalytic site; other site 387093004704 metal-binding site 387093004705 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 387093004706 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 387093004707 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 387093004708 Walker A/P-loop; other site 387093004709 ATP binding site [chemical binding]; other site 387093004710 Q-loop/lid; other site 387093004711 ABC transporter signature motif; other site 387093004712 Walker B; other site 387093004713 D-loop; other site 387093004714 H-loop/switch region; other site 387093004715 ABC-2 type transporter; Region: ABC2_membrane; cl11417 387093004716 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 387093004717 SLBB domain; Region: SLBB; pfam10531 387093004718 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 387093004719 active site 387093004720 metal binding site [ion binding]; metal-binding site 387093004721 AMIN domain; Region: AMIN; pfam11741 387093004722 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 387093004723 active site 387093004724 metal binding site [ion binding]; metal-binding site 387093004725 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 387093004726 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 387093004727 FMN binding site [chemical binding]; other site 387093004728 substrate binding site [chemical binding]; other site 387093004729 putative catalytic residue [active] 387093004730 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 387093004731 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 387093004732 active site 387093004733 HIGH motif; other site 387093004734 dimer interface [polypeptide binding]; other site 387093004735 KMSKS motif; other site 387093004736 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 387093004737 RNA binding surface [nucleotide binding]; other site 387093004738 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 387093004739 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 387093004740 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 387093004741 synthetase active site [active] 387093004742 NTP binding site [chemical binding]; other site 387093004743 metal binding site [ion binding]; metal-binding site 387093004744 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 387093004745 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 387093004746 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 387093004747 putative nucleotide binding site [chemical binding]; other site 387093004748 uridine monophosphate binding site [chemical binding]; other site 387093004749 homohexameric interface [polypeptide binding]; other site 387093004750 Peptidase family M23; Region: Peptidase_M23; pfam01551 387093004751 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 387093004752 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 387093004753 Walker A/P-loop; other site 387093004754 ATP binding site [chemical binding]; other site 387093004755 Q-loop/lid; other site 387093004756 ABC transporter signature motif; other site 387093004757 Walker B; other site 387093004758 D-loop; other site 387093004759 H-loop/switch region; other site 387093004760 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; cl15754 387093004761 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; cl00065 387093004762 Interdomain contacts; other site 387093004763 Cytokine receptor motif; other site 387093004764 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 387093004765 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 387093004766 RNA binding surface [nucleotide binding]; other site 387093004767 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 387093004768 active site 387093004769 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 387093004770 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 387093004771 Ligand Binding Site [chemical binding]; other site 387093004772 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 387093004773 Acyl transferase domain; Region: Acyl_transf_1; cl08282 387093004774 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 387093004775 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 387093004776 Rubredoxin; Region: Rubredoxin; pfam00301 387093004777 iron binding site [ion binding]; other site 387093004778 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 387093004779 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 387093004780 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 387093004781 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 387093004782 putative catalytic cysteine [active] 387093004783 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 387093004784 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093004785 tol-pal system protein YbgF; Provisional; Region: PRK10803 387093004786 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 387093004787 ligand binding site [chemical binding]; other site 387093004788 translocation protein TolB; Provisional; Region: tolB; PRK04043 387093004789 AMMECR1; Region: AMMECR1; cl00911 387093004790 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 387093004791 putative ligand binding pocket/active site [active] 387093004792 putative metal binding site [ion binding]; other site 387093004793 Gram-negative bacterial tonB protein; Region: TonB; cl10048 387093004794 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 387093004795 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 387093004796 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 387093004797 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 387093004798 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 387093004799 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 387093004800 alpha subunit interaction interface [polypeptide binding]; other site 387093004801 Walker A motif; other site 387093004802 ATP binding site [chemical binding]; other site 387093004803 Walker B motif; other site 387093004804 inhibitor binding site; inhibition site 387093004805 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 387093004806 ATP synthase; Region: ATP-synt; cl00365 387093004807 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 387093004808 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 387093004809 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 387093004810 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 387093004811 beta subunit interaction interface [polypeptide binding]; other site 387093004812 Walker A motif; other site 387093004813 ATP binding site [chemical binding]; other site 387093004814 Walker B motif; other site 387093004815 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 387093004816 Plant ATP synthase F0; Region: YMF19; cl07975 387093004817 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 387093004818 Plant ATP synthase F0; Region: YMF19; cl07975 387093004819 Plant ATP synthase F0; Region: YMF19; cl07975 387093004820 ParB-like partition proteins; Region: parB_part; TIGR00180 387093004821 ParB-like nuclease domain; Region: ParBc; cl02129 387093004822 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 387093004823 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 387093004824 P-loop; other site 387093004825 Magnesium ion binding site [ion binding]; other site 387093004826 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 387093004827 Magnesium ion binding site [ion binding]; other site 387093004828 biotin--protein ligase; Provisional; Region: PRK08477 387093004829 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 387093004830 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 387093004831 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 387093004832 putative active site [active] 387093004833 substrate binding site [chemical binding]; other site 387093004834 putative cosubstrate binding site; other site 387093004835 catalytic site [active] 387093004836 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 387093004837 substrate binding site [chemical binding]; other site 387093004838 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 387093004839 nucleotide binding site [chemical binding]; other site 387093004840 homotetrameric interface [polypeptide binding]; other site 387093004841 putative phosphate binding site [ion binding]; other site 387093004842 putative allosteric binding site; other site 387093004843 GTPase CgtA; Reviewed; Region: obgE; PRK12299 387093004844 GTP1/OBG; Region: GTP1_OBG; pfam01018 387093004845 Obg GTPase; Region: Obg; cd01898 387093004846 G1 box; other site 387093004847 GTP/Mg2+ binding site [chemical binding]; other site 387093004848 Switch I region; other site 387093004849 G2 box; other site 387093004850 G3 box; other site 387093004851 Switch II region; other site 387093004852 G4 box; other site 387093004853 G5 box; other site 387093004854 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 387093004855 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 387093004856 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 387093004857 homotrimer interaction site [polypeptide binding]; other site 387093004858 putative active site [active] 387093004859 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 387093004860 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 387093004861 ATP binding site [chemical binding]; other site 387093004862 substrate interface [chemical binding]; other site 387093004863 Predicted amidohydrolase [General function prediction only]; Region: COG0388 387093004864 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 387093004865 active site 387093004866 catalytic triad [active] 387093004867 dimer interface [polypeptide binding]; other site 387093004868 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 387093004869 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 387093004870 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 387093004871 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 387093004872 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 387093004873 homodimer interface [polypeptide binding]; other site 387093004874 substrate-cofactor binding pocket; other site 387093004875 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093004876 catalytic residue [active] 387093004877 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 387093004878 non-specific DNA binding site [nucleotide binding]; other site 387093004879 salt bridge; other site 387093004880 sequence-specific DNA binding site [nucleotide binding]; other site 387093004881 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 387093004882 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 387093004883 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 387093004884 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 387093004885 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 387093004886 active site 387093004887 Amidase; Region: Amidase; cl11426 387093004888 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 387093004889 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 387093004890 active site 387093004891 HIGH motif; other site 387093004892 nucleotide binding site [chemical binding]; other site 387093004893 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 387093004894 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 387093004895 active site 387093004896 KMSKS motif; other site 387093004897 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 387093004898 tRNA binding surface [nucleotide binding]; other site 387093004899 anticodon binding site; other site 387093004900 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 387093004901 Competence-damaged protein; Region: CinA; cl00666 387093004902 Excalibur calcium-binding domain; Region: Excalibur; cl05460 387093004903 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 387093004904 histidinol dehydrogenase; Region: hisD; TIGR00069 387093004905 NAD binding site [chemical binding]; other site 387093004906 dimerization interface [polypeptide binding]; other site 387093004907 product binding site; other site 387093004908 substrate binding site [chemical binding]; other site 387093004909 zinc binding site [ion binding]; other site 387093004910 catalytic residues [active] 387093004911 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 387093004912 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 387093004913 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 387093004914 active site 387093004915 intersubunit interface [polypeptide binding]; other site 387093004916 zinc binding site [ion binding]; other site 387093004917 Na+ binding site [ion binding]; other site 387093004918 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 387093004919 PPIC-type PPIASE domain; Region: Rotamase; cl08278 387093004920 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 387093004921 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 387093004922 minor groove reading motif; other site 387093004923 helix-hairpin-helix signature motif; other site 387093004924 substrate binding pocket [chemical binding]; other site 387093004925 active site 387093004926 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 387093004927 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 387093004928 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 387093004929 metal binding site [ion binding]; metal-binding site 387093004930 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 387093004931 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 387093004932 Phosphagen (guanidino) kinases mostly found in eukaryotes; Region: eukaryotic_phosphagen_kinases; cd07931 387093004933 phosphagen binding site; other site 387093004934 ADP binding site [chemical binding]; other site 387093004935 substrate specificity loop; other site 387093004936 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 387093004937 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 387093004938 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093004939 catalytic residue [active] 387093004940 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 387093004941 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 387093004942 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 387093004943 ABC transporter; Region: ABC_tran_2; pfam12848 387093004944 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 387093004945 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 387093004946 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 387093004947 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 387093004948 substrate binding pocket [chemical binding]; other site 387093004949 dimer interface [polypeptide binding]; other site 387093004950 inhibitor binding site; inhibition site 387093004951 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 387093004952 B12 binding site [chemical binding]; other site 387093004953 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 387093004954 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 387093004955 PAS domain; Region: PAS_9; pfam13426 387093004956 putative active site [active] 387093004957 heme pocket [chemical binding]; other site 387093004958 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 387093004959 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 387093004960 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 387093004961 trimer interface [polypeptide binding]; other site 387093004962 active site 387093004963 UDP-GlcNAc binding site [chemical binding]; other site 387093004964 lipid binding site [chemical binding]; lipid-binding site 387093004965 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 387093004966 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 387093004967 putative valine binding site [chemical binding]; other site 387093004968 dimer interface [polypeptide binding]; other site 387093004969 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 387093004970 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08527 387093004971 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 387093004972 PYR/PP interface [polypeptide binding]; other site 387093004973 dimer interface [polypeptide binding]; other site 387093004974 TPP binding site [chemical binding]; other site 387093004975 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 387093004976 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 387093004977 TPP-binding site [chemical binding]; other site 387093004978 dimer interface [polypeptide binding]; other site 387093004979 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 387093004980 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 387093004981 dimer interface [polypeptide binding]; other site 387093004982 phosphorylation site [posttranslational modification] 387093004983 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 387093004984 ATP binding site [chemical binding]; other site 387093004985 Mg2+ binding site [ion binding]; other site 387093004986 G-X-G motif; other site 387093004987 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093004988 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 387093004989 active site 387093004990 phosphorylation site [posttranslational modification] 387093004991 intermolecular recognition site; other site 387093004992 dimerization interface [polypeptide binding]; other site 387093004993 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 387093004994 DNA binding site [nucleotide binding] 387093004995 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 387093004996 threonine dehydratase; Provisional; Region: PRK08526 387093004997 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 387093004998 tetramer interface [polypeptide binding]; other site 387093004999 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093005000 catalytic residue [active] 387093005001 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 387093005002 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 387093005003 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 387093005004 active site residue [active] 387093005005 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093005006 Walker A/P-loop; other site 387093005007 ATP binding site [chemical binding]; other site 387093005008 Q-loop/lid; other site 387093005009 ABC transporter signature motif; other site 387093005010 Walker B; other site 387093005011 selenophosphate synthetase; Provisional; Region: PRK00943 387093005012 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 387093005013 dimerization interface [polypeptide binding]; other site 387093005014 putative ATP binding site [chemical binding]; other site 387093005015 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387093005016 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093005017 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; cl15754 387093005018 tRNA (uracil-5-)-methyltransferase; Region: trmA_only; TIGR02143 387093005019 Uncharacterized conserved protein [Function unknown]; Region: COG3287 387093005020 FIST N domain; Region: FIST; cl10701 387093005021 FIST C domain; Region: FIST_C; pfam10442 387093005022 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 387093005023 dimer interface [polypeptide binding]; other site 387093005024 phosphorylation site [posttranslational modification] 387093005025 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 387093005026 ATP binding site [chemical binding]; other site 387093005027 Mg2+ binding site [ion binding]; other site 387093005028 G-X-G motif; other site 387093005029 Response regulator receiver domain; Region: Response_reg; pfam00072 387093005030 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 387093005031 active site 387093005032 phosphorylation site [posttranslational modification] 387093005033 intermolecular recognition site; other site 387093005034 dimerization interface [polypeptide binding]; other site 387093005035 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 387093005036 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 387093005037 Substrate binding site; other site 387093005038 Mg++ binding site; other site 387093005039 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 387093005040 active site 387093005041 substrate binding site [chemical binding]; other site 387093005042 CoA binding site [chemical binding]; other site 387093005043 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 387093005044 Flavoprotein; Region: Flavoprotein; cl08021 387093005045 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 387093005046 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 387093005047 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 387093005048 catalytic residue [active] 387093005049 putative FPP diphosphate binding site; other site 387093005050 putative FPP binding hydrophobic cleft; other site 387093005051 dimer interface [polypeptide binding]; other site 387093005052 putative IPP diphosphate binding site; other site 387093005053 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 387093005054 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 387093005055 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 387093005056 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 387093005057 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 387093005058 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 387093005059 dimerization interface 3.5A [polypeptide binding]; other site 387093005060 active site 387093005061 Nitrate and nitrite sensing; Region: NIT; pfam08376 387093005062 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 387093005063 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 387093005064 dimer interface [polypeptide binding]; other site 387093005065 phosphorylation site [posttranslational modification] 387093005066 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 387093005067 ATP binding site [chemical binding]; other site 387093005068 Mg2+ binding site [ion binding]; other site 387093005069 G-X-G motif; other site 387093005070 Response regulator receiver domain; Region: Response_reg; pfam00072 387093005071 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 387093005072 active site 387093005073 phosphorylation site [posttranslational modification] 387093005074 intermolecular recognition site; other site 387093005075 dimerization interface [polypeptide binding]; other site 387093005076 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 387093005077 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 387093005078 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 387093005079 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 387093005080 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 387093005081 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 387093005082 Cytochrome c; Region: Cytochrom_C; cl11414 387093005083 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 387093005084 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 387093005085 putative catalytic site [active] 387093005086 putative metal binding site [ion binding]; other site 387093005087 putative phosphate binding site [ion binding]; other site 387093005088 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 387093005089 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 387093005090 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 387093005091 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 387093005092 FecR protein; Region: FecR; pfam04773 387093005093 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 387093005094 CHASE2 domain; Region: CHASE2; cl01732 387093005095 cyclase homology domain; Region: CHD; cd07302 387093005096 nucleotidyl binding site; other site 387093005097 metal binding site [ion binding]; metal-binding site 387093005098 dimer interface [polypeptide binding]; other site 387093005099 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 387093005100 GAF domain; Region: GAF; cl15785 387093005101 GAF domain; Region: GAF_2; pfam13185 387093005102 FIST N domain; Region: FIST; cl10701 387093005103 Uncharacterized conserved protein [Function unknown]; Region: COG3287 387093005104 FIST C domain; Region: FIST_C; pfam10442 387093005105 PAS domain; Region: PAS_9; pfam13426 387093005106 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 387093005107 PAS fold; Region: PAS_3; pfam08447 387093005108 putative active site [active] 387093005109 heme pocket [chemical binding]; other site 387093005110 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 387093005111 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 387093005112 putative active site [active] 387093005113 heme pocket [chemical binding]; other site 387093005114 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 387093005115 dimer interface [polypeptide binding]; other site 387093005116 phosphorylation site [posttranslational modification] 387093005117 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 387093005118 ATP binding site [chemical binding]; other site 387093005119 Mg2+ binding site [ion binding]; other site 387093005120 G-X-G motif; other site 387093005121 Response regulator receiver domain; Region: Response_reg; pfam00072 387093005122 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 387093005123 active site 387093005124 phosphorylation site [posttranslational modification] 387093005125 intermolecular recognition site; other site 387093005126 dimerization interface [polypeptide binding]; other site 387093005127 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 387093005128 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 387093005129 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 387093005130 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 387093005131 DsbD alpha interface [polypeptide binding]; other site 387093005132 catalytic residues [active] 387093005133 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 387093005134 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 387093005135 catalytic residues [active] 387093005136 ApbE family; Region: ApbE; cl00643 387093005137 FMN-binding domain; Region: FMN_bind; cl01081 387093005138 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 387093005139 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 387093005140 FOG: CBS domain [General function prediction only]; Region: COG0517 387093005141 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_17; cd04630 387093005142 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 387093005143 dimer interface [polypeptide binding]; other site 387093005144 phosphorylation site [posttranslational modification] 387093005145 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 387093005146 ATP binding site [chemical binding]; other site 387093005147 Mg2+ binding site [ion binding]; other site 387093005148 G-X-G motif; other site 387093005149 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 387093005150 active site 387093005151 phosphorylation site [posttranslational modification] 387093005152 intermolecular recognition site; other site 387093005153 dimerization interface [polypeptide binding]; other site 387093005154 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 387093005155 DNA binding site [nucleotide binding] 387093005156 Chorismate mutase type II; Region: CM_2; cl00693 387093005157 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 387093005158 heat shock protein GrpE; Provisional; Region: PRK14141 387093005159 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 387093005160 dimer interface [polypeptide binding]; other site 387093005161 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 387093005162 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 387093005163 16S/18S rRNA binding site [nucleotide binding]; other site 387093005164 S13e-L30e interaction site [polypeptide binding]; other site 387093005165 25S rRNA binding site [nucleotide binding]; other site 387093005166 Rrf2 family protein; Region: rrf2_super; TIGR00738 387093005167 Helix-turn-helix domains; Region: HTH; cl00088 387093005168 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 387093005169 recombination protein RecR; Reviewed; Region: recR; PRK00076 387093005170 RecR protein; Region: RecR; pfam02132 387093005171 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 387093005172 putative active site [active] 387093005173 putative metal-binding site [ion binding]; other site 387093005174 tetramer interface [polypeptide binding]; other site 387093005175 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 387093005176 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 387093005177 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 387093005178 HSP70 interaction site [polypeptide binding]; other site 387093005179 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 387093005180 substrate binding site [polypeptide binding]; other site 387093005181 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 387093005182 Zn binding sites [ion binding]; other site 387093005183 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 387093005184 dimer interface [polypeptide binding]; other site 387093005185 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 387093005186 non-heme iron binding site [ion binding]; other site 387093005187 dimer interface [polypeptide binding]; other site 387093005188 Rubrerythrin [Energy production and conversion]; Region: COG1592 387093005189 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 387093005190 binuclear metal center [ion binding]; other site 387093005191 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 387093005192 iron binding site [ion binding]; other site 387093005193 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 387093005194 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 387093005195 IHF dimer interface [polypeptide binding]; other site 387093005196 IHF - DNA interface [nucleotide binding]; other site 387093005197 ATP synthase subunit C; Region: ATP-synt_C; cl00466 387093005198 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 387093005199 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 387093005200 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 387093005201 oligomer interface [polypeptide binding]; other site 387093005202 RNA binding site [nucleotide binding]; other site 387093005203 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 387093005204 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 387093005205 RNase E interface [polypeptide binding]; other site 387093005206 trimer interface [polypeptide binding]; other site 387093005207 active site 387093005208 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 387093005209 putative nucleic acid binding region [nucleotide binding]; other site 387093005210 G-X-X-G motif; other site 387093005211 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 387093005212 RNA binding site [nucleotide binding]; other site 387093005213 domain interface; other site 387093005214 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 387093005215 active site 387093005216 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 387093005217 HSP70 interaction site [polypeptide binding]; other site 387093005218 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 387093005219 Organic solvent tolerance protein; Region: OstA_C; pfam04453 387093005220 RDD family; Region: RDD; cl00746 387093005221 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 387093005222 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 387093005223 ATP-grasp domain; Region: ATP-grasp_4; cl03087 387093005224 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 387093005225 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 387093005226 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 387093005227 active site 387093005228 Cation efflux family; Region: Cation_efflux; cl00316 387093005229 heat shock protein 90; Provisional; Region: PRK05218 387093005230 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 387093005231 ATP binding site [chemical binding]; other site 387093005232 Mg2+ binding site [ion binding]; other site 387093005233 G-X-G motif; other site 387093005234 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 387093005235 catalytic core [active] 387093005236 GMP synthase; Reviewed; Region: guaA; PRK00074 387093005237 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 387093005238 AMP/PPi binding site [chemical binding]; other site 387093005239 candidate oxyanion hole; other site 387093005240 catalytic triad [active] 387093005241 potential glutamine specificity residues [chemical binding]; other site 387093005242 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 387093005243 ATP Binding subdomain [chemical binding]; other site 387093005244 Ligand Binding sites [chemical binding]; other site 387093005245 Dimerization subdomain; other site 387093005246 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 387093005247 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 387093005248 transmembrane helices; other site 387093005249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093005250 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 387093005251 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 387093005252 Protein of unknown function (DUF721); Region: DUF721; cl02324 387093005253 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 387093005254 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 387093005255 GIY-YIG motif/motif A; other site 387093005256 active site 387093005257 catalytic site [active] 387093005258 putative DNA binding site [nucleotide binding]; other site 387093005259 metal binding site [ion binding]; metal-binding site 387093005260 UvrB/uvrC motif; Region: UVR; pfam02151 387093005261 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 387093005262 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 387093005263 PAS fold; Region: PAS_3; pfam08447 387093005264 putative active site [active] 387093005265 heme pocket [chemical binding]; other site 387093005266 Nitrate and nitrite sensing; Region: NIT; pfam08376 387093005267 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 387093005268 dimer interface [polypeptide binding]; other site 387093005269 phosphorylation site [posttranslational modification] 387093005270 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 387093005271 ATP binding site [chemical binding]; other site 387093005272 Mg2+ binding site [ion binding]; other site 387093005273 G-X-G motif; other site 387093005274 Response regulator receiver domain; Region: Response_reg; pfam00072 387093005275 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 387093005276 active site 387093005277 phosphorylation site [posttranslational modification] 387093005278 intermolecular recognition site; other site 387093005279 dimerization interface [polypeptide binding]; other site 387093005280 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 387093005281 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 387093005282 active site 387093005283 phosphorylation site [posttranslational modification] 387093005284 intermolecular recognition site; other site 387093005285 dimerization interface [polypeptide binding]; other site 387093005286 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 387093005287 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 387093005288 Walker A motif; other site 387093005289 ATP binding site [chemical binding]; other site 387093005290 Walker B motif; other site 387093005291 arginine finger; other site 387093005292 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 387093005293 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 387093005294 CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast; Region: CUB; cd00041 387093005295 Fibronectin type III-like domain; Region: Fn3-like; cl15273 387093005296 Fibronectin type III-like domain; Region: Fn3-like; cl15273 387093005297 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 387093005298 30S subunit binding site; other site 387093005299 Protein of unknown function, DUF481; Region: DUF481; cl01213 387093005300 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 387093005301 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 387093005302 generic binding surface II; other site 387093005303 ssDNA binding site; other site 387093005304 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 387093005305 ATP binding site [chemical binding]; other site 387093005306 putative Mg++ binding site [ion binding]; other site 387093005307 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 387093005308 nucleotide binding region [chemical binding]; other site 387093005309 ATP-binding site [chemical binding]; other site 387093005310 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 387093005311 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 387093005312 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 387093005313 hypothetical protein; Provisional; Region: PRK08445 387093005314 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 387093005315 FeS/SAM binding site; other site 387093005316 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 387093005317 putative RNA binding site [nucleotide binding]; other site 387093005318 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 387093005319 homopentamer interface [polypeptide binding]; other site 387093005320 active site 387093005321 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 387093005322 NeuB family; Region: NeuB; cl00496 387093005323 EamA-like transporter family; Region: EamA; cl01037 387093005324 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 387093005325 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 387093005326 Domain of unknown function (DUF4348); Region: DUF4348; pfam14254 387093005327 Mechanosensitive ion channel; Region: MS_channel; pfam00924 387093005328 GTP-binding protein Der; Reviewed; Region: PRK00093 387093005329 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 387093005330 G1 box; other site 387093005331 GTP/Mg2+ binding site [chemical binding]; other site 387093005332 Switch I region; other site 387093005333 G2 box; other site 387093005334 Switch II region; other site 387093005335 G3 box; other site 387093005336 G4 box; other site 387093005337 G5 box; other site 387093005338 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093005339 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 387093005340 G1 box; other site 387093005341 Walker A/P-loop; other site 387093005342 GTP/Mg2+ binding site [chemical binding]; other site 387093005343 ATP binding site [chemical binding]; other site 387093005344 Switch I region; other site 387093005345 G2 box; other site 387093005346 G3 box; other site 387093005347 Switch II region; other site 387093005348 G4 box; other site 387093005349 G5 box; other site 387093005350 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 387093005351 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 387093005352 active site 387093005353 HIGH motif; other site 387093005354 dimer interface [polypeptide binding]; other site 387093005355 KMSKS motif; other site 387093005356 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 387093005357 transcription termination factor Rho; Provisional; Region: rho; PRK09376 387093005358 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 387093005359 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 387093005360 RNA binding site [nucleotide binding]; other site 387093005361 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 387093005362 multimer interface [polypeptide binding]; other site 387093005363 Walker A motif; other site 387093005364 ATP binding site [chemical binding]; other site 387093005365 Walker B motif; other site 387093005366 glutamate dehydrogenase; Provisional; Region: PRK09414 387093005367 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 387093005368 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 387093005369 NAD(P) binding site [chemical binding]; other site 387093005370 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 387093005371 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 387093005372 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 387093005373 metal-binding site [ion binding] 387093005374 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 387093005375 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387093005376 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 387093005377 YfaZ precursor; Region: YfaZ; pfam07437 387093005378 UDP-glucose 4-epimerase; Region: PLN02240 387093005379 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 387093005380 NAD binding site [chemical binding]; other site 387093005381 homodimer interface [polypeptide binding]; other site 387093005382 active site 387093005383 substrate binding site [chemical binding]; other site 387093005384 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 387093005385 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 387093005386 active site 387093005387 substrate binding site [chemical binding]; other site 387093005388 metal binding site [ion binding]; metal-binding site 387093005389 glucose-6-phosphate isomerase; Provisional; Region: PRK03868 387093005390 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 387093005391 active site 387093005392 dimer interface [polypeptide binding]; other site 387093005393 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 387093005394 dimer interface [polypeptide binding]; other site 387093005395 active site 387093005396 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 387093005397 active site 387093005398 tetramer interface; other site 387093005399 Transposase, Mutator family; Region: Transposase_mut; pfam00872 387093005400 MULE transposase domain; Region: MULE; pfam10551 387093005401 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 387093005402 Bacterial sugar transferase; Region: Bac_transf; cl00939 387093005403 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 387093005404 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 387093005405 active site 387093005406 motif I; other site 387093005407 motif II; other site 387093005408 Pseudogene. Similar to ADP-L-glycero-D-manno-heptose-6-epimerase. This CDS appears to have two frameshift mutations following codon 42 and 62. 387093005409 Probable gene remnant. Similar to the N-terminal region of Thiomicrospira denitrificans ATCC 33889 ADP-L-glycero-D-manno-heptose-6-epimerase (336 aa) Tmden_0579. 387093005410 Probable gene remnant. Similar to the central region of Thiomicrospira denitrificans ATCC 33889 ADP-L-glycero-D-manno-heptose-6-epimerase (336 aa) Tmden_0579. 387093005411 Probable gene remnant. Similar to the C-terminal region of Thiomicrospira denitrificans ATCC 33889 ADP-L-glycero-D-manno-heptose-6-epimerase (336 aa) Tmden_0579. 387093005412 Pseudogene. Similar to ADP-heptose synthase RfaE, bifunctional protein. This CDS appears to have a frameshift mutation following codon 122. 387093005413 Probable gene remnant. Similar to the N-terminal region of Thiomicrospira denitrificans ATCC 33889 ADP-heptose synthase RfaE, bifunctional protein (477 aa) Tmden_0580. 387093005414 Probable gene remnant. Similar to the C-terminal region of Thiomicrospira denitrificans ATCC 33889 ADP-heptose synthase RfaE, bifunctional protein (477 aa) Tmden_0580. 387093005415 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 387093005416 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 387093005417 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093005418 Walker A/P-loop; other site 387093005419 ATP binding site [chemical binding]; other site 387093005420 Q-loop/lid; other site 387093005421 ABC transporter signature motif; other site 387093005422 Walker B; other site 387093005423 D-loop; other site 387093005424 H-loop/switch region; other site 387093005425 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 387093005426 putative metal binding site; other site 387093005427 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 387093005428 putative acyl-acceptor binding pocket; other site 387093005429 O-Antigen ligase; Region: Wzy_C; cl04850 387093005430 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 387093005431 Sulfatase; Region: Sulfatase; cl10460 387093005432 Probable gene remnant. Similar to the central region of Helicobacter hepaticus ATCC 51449 multidrug resistance protein MsbA (571 aa) HH_0684. 387093005433 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 387093005434 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 387093005435 putative active site [active] 387093005436 oxyanion strand; other site 387093005437 catalytic triad [active] 387093005438 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 387093005439 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 387093005440 catalytic residues [active] 387093005441 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 387093005442 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093005443 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 387093005444 S-adenosylmethionine binding site [chemical binding]; other site 387093005445 FtsH Extracellular; Region: FtsH_ext; pfam06480 387093005446 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 387093005447 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 387093005448 Walker A motif; other site 387093005449 ATP binding site [chemical binding]; other site 387093005450 Walker B motif; other site 387093005451 arginine finger; other site 387093005452 Peptidase family M41; Region: Peptidase_M41; pfam01434 387093005453 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 387093005454 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 387093005455 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 387093005456 2-isopropylmalate synthase; Validated; Region: PRK00915 387093005457 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 387093005458 active site 387093005459 catalytic residues [active] 387093005460 metal binding site [ion binding]; metal-binding site 387093005461 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 387093005462 seryl-tRNA synthetase; Provisional; Region: PRK05431 387093005463 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 387093005464 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 387093005465 dimer interface [polypeptide binding]; other site 387093005466 active site 387093005467 motif 1; other site 387093005468 motif 2; other site 387093005469 motif 3; other site 387093005470 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 387093005471 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 387093005472 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 387093005473 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 387093005474 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 387093005475 Probable gene remnant. Similar to the C-terminal region of Desulfovibrio desulfuricans G20 ISPg7, transposase (438 aa) Dde_2849. 387093005476 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 387093005477 catalytic residues [active] 387093005478 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 387093005479 oligomerisation interface [polypeptide binding]; other site 387093005480 mobile loop; other site 387093005481 roof hairpin; other site 387093005482 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 387093005483 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 387093005484 ring oligomerisation interface [polypeptide binding]; other site 387093005485 ATP/Mg binding site [chemical binding]; other site 387093005486 stacking interactions; other site 387093005487 hinge regions; other site 387093005488 PAS domain; Region: PAS_9; pfam13426 387093005489 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 387093005490 metal binding site [ion binding]; metal-binding site 387093005491 active site 387093005492 I-site; other site 387093005493 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 387093005494 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 387093005495 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 387093005496 generic binding surface II; other site 387093005497 generic binding surface I; other site 387093005498 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 387093005499 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 387093005500 S-adenosylmethionine binding site [chemical binding]; other site 387093005501 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 387093005502 catalytic motif [active] 387093005503 Zn binding site [ion binding]; other site 387093005504 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 387093005505 ribosome maturation protein RimP; Reviewed; Region: PRK00092 387093005506 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 387093005507 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 387093005508 Ribosome-binding factor A; Region: RBFA; cl00542 387093005509 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 387093005510 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 387093005511 translation initiation factor IF-2; Region: IF-2; TIGR00487 387093005512 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 387093005513 G1 box; other site 387093005514 putative GEF interaction site [polypeptide binding]; other site 387093005515 GTP/Mg2+ binding site [chemical binding]; other site 387093005516 Switch I region; other site 387093005517 G2 box; other site 387093005518 G3 box; other site 387093005519 Switch II region; other site 387093005520 G4 box; other site 387093005521 G5 box; other site 387093005522 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 387093005523 Translation-initiation factor 2; Region: IF-2; pfam11987 387093005524 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 387093005525 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 387093005526 homoserine kinase; Provisional; Region: PRK01212 387093005527 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 387093005528 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 387093005529 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 387093005530 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 387093005531 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 387093005532 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 387093005533 Peptidase family M23; Region: Peptidase_M23; pfam01551 387093005534 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 387093005535 DHH family; Region: DHH; pfam01368 387093005536 DHHA1 domain; Region: DHHA1; pfam02272 387093005537 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05848 387093005538 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 387093005539 dimerization interface [polypeptide binding]; other site 387093005540 active site 387093005541 Quinolinate synthetase A protein; Region: NadA; cl00420 387093005542 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 387093005543 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 387093005544 active site 387093005545 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093005546 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 387093005547 active site 387093005548 phosphorylation site [posttranslational modification] 387093005549 intermolecular recognition site; other site 387093005550 dimerization interface [polypeptide binding]; other site 387093005551 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 387093005552 DNA binding site [nucleotide binding] 387093005553 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 387093005554 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 387093005555 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 387093005556 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 387093005557 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 387093005558 active site 387093005559 FMN binding site [chemical binding]; other site 387093005560 substrate binding site [chemical binding]; other site 387093005561 3Fe-4S cluster binding site [ion binding]; other site 387093005562 RNA dependent RNA polymerase; Region: RdRP_2; pfam00978 387093005563 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 387093005564 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 387093005565 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 387093005566 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093005567 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093005568 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 387093005569 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 387093005570 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 387093005571 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 387093005572 metal binding triad [ion binding]; metal-binding site 387093005573 phosphate acetyltransferase; Reviewed; Region: PRK05632 387093005574 DRTGG domain; Region: DRTGG; cl12147 387093005575 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 387093005576 Acetokinase family; Region: Acetate_kinase; cl01029 387093005577 propionate/acetate kinase; Provisional; Region: PRK12379 387093005578 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 387093005579 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 387093005580 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 387093005581 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 387093005582 Surface antigen; Region: Bac_surface_Ag; cl03097 387093005583 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093005584 Prephenate dehydrogenase; Region: PDH; pfam02153 387093005585 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 387093005586 Domain of unknown function (DUF389); Region: DUF389; cl00781 387093005587 Oxygen tolerance; Region: BatD; pfam13584 387093005588 Oxygen tolerance; Region: BatD; pfam13584 387093005589 Pseudogene. Similar to von Willebrand factor type A domain protein. This CDS appears to have a frameshift mutation following codon 336. 387093005590 Probable gene remnant. Similar to the C-terminal region of Thiomicrospira denitrificans ATCC 33889 von Willebrand factor type A domain protein (595 aa) Tmden_0657. 387093005591 Probable gene remnant. Similar to the N-terminal region of Thiomicrospira denitrificans ATCC 33889 von Willebrand factor type A domain protein (595 aa) Tmden_0657. 387093005592 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 387093005593 metal ion-dependent adhesion site (MIDAS); other site 387093005594 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 387093005595 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 387093005596 MoxR-like ATPases [General function prediction only]; Region: COG0714 387093005597 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 387093005598 Walker A motif; other site 387093005599 ATP binding site [chemical binding]; other site 387093005600 Walker B motif; other site 387093005601 arginine finger; other site 387093005602 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 387093005603 Bacterial SH3 domain; Region: SH3_3; cl02551 387093005604 Protein of unknown function (DUF1625); Region: DUF1625; pfam07787 387093005605 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 387093005606 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 387093005607 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 387093005608 Bacterial SH3 domain; Region: SH3_3; cl02551 387093005609 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 387093005610 metal ion-dependent adhesion site (MIDAS); other site 387093005611 Bacterial SH3 domain; Region: SH3_3; cl02551 387093005612 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 387093005613 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 387093005614 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 387093005615 CAS/CSE protein involved in chromosome segregation [Cell division and chromosome partitioning]; Region: CSE1; COG5657 387093005616 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 387093005617 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 387093005618 active site 387093005619 metal binding site [ion binding]; metal-binding site 387093005620 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 387093005621 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 387093005622 ligand binding site [chemical binding]; other site 387093005623 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 387093005624 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 387093005625 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 387093005626 Histidine kinase; Region: HisKA_2; cl06527 387093005627 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 387093005628 ATP binding site [chemical binding]; other site 387093005629 Mg2+ binding site [ion binding]; other site 387093005630 G-X-G motif; other site 387093005631 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093005632 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 387093005633 active site 387093005634 phosphorylation site [posttranslational modification] 387093005635 intermolecular recognition site; other site 387093005636 dimerization interface [polypeptide binding]; other site 387093005637 Helix-turn-helix domains; Region: HTH; cl00088 387093005638 Probable gene remnant. Similar to the C-terminal region of Desulfovibrio desulfuricans G20 ISPg7, transposase (438 aa) Dde_2849. 387093005639 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 387093005640 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 387093005641 DEAD-like helicases superfamily; Region: DEXDc; smart00487 387093005642 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 387093005643 ATP binding site [chemical binding]; other site 387093005644 putative Mg++ binding site [ion binding]; other site 387093005645 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 387093005646 nucleotide binding region [chemical binding]; other site 387093005647 ATP-binding site [chemical binding]; other site 387093005648 TRCF domain; Region: TRCF; cl04088 387093005649 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 387093005650 Lipopolysaccharide-assembly; Region: LptE; cl01125 387093005651 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 387093005652 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 387093005653 HIGH motif; other site 387093005654 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 387093005655 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 387093005656 active site 387093005657 KMSKS motif; other site 387093005658 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 387093005659 tRNA binding surface [nucleotide binding]; other site 387093005660 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 387093005661 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 387093005662 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 387093005663 Walker A motif; other site 387093005664 ATP binding site [chemical binding]; other site 387093005665 Walker B motif; other site 387093005666 arginine finger; other site 387093005667 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 387093005668 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 387093005669 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 387093005670 putative active site [active] 387093005671 metal binding site [ion binding]; metal-binding site 387093005672 homodimer binding site [polypeptide binding]; other site 387093005673 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 387093005674 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 387093005675 dimer interface [polypeptide binding]; other site 387093005676 active site 387093005677 CoA binding pocket [chemical binding]; other site 387093005678 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 387093005679 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 387093005680 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 387093005681 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 387093005682 active site 387093005683 multimer interface [polypeptide binding]; other site 387093005684 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 387093005685 S-adenosylmethionine synthetase; Validated; Region: PRK05250 387093005686 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 387093005687 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 387093005688 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 387093005689 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 387093005690 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 387093005691 TPP-binding site; other site 387093005692 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 387093005693 PYR/PP interface [polypeptide binding]; other site 387093005694 dimer interface [polypeptide binding]; other site 387093005695 TPP binding site [chemical binding]; other site 387093005696 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 387093005697 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 387093005698 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 387093005699 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093005700 homodimer interface [polypeptide binding]; other site 387093005701 catalytic residue [active] 387093005702 Chorismate mutase type II; Region: CM_2; cl00693 387093005703 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 387093005704 Prephenate dehydratase; Region: PDT; pfam00800 387093005705 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 387093005706 putative L-Phe binding site [chemical binding]; other site 387093005707 diaminopimelate decarboxylase; Region: lysA; TIGR01048 387093005708 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 387093005709 active site 387093005710 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 387093005711 substrate binding site [chemical binding]; other site 387093005712 catalytic residues [active] 387093005713 dimer interface [polypeptide binding]; other site 387093005714 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 387093005715 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 387093005716 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 387093005717 putative active site [active] 387093005718 catalytic residue [active] 387093005719 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 387093005720 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 387093005721 5S rRNA interface [nucleotide binding]; other site 387093005722 CTC domain interface [polypeptide binding]; other site 387093005723 L16 interface [polypeptide binding]; other site 387093005724 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 387093005725 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093005726 ATP binding site [chemical binding]; other site 387093005727 Walker B motif; other site 387093005728 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 387093005729 transaldolase; Provisional; Region: PRK03903 387093005730 catalytic residue [active] 387093005731 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 387093005732 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 387093005733 Clp amino terminal domain; Region: Clp_N; pfam02861 387093005734 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 387093005735 Walker A motif; other site 387093005736 ATP binding site [chemical binding]; other site 387093005737 Walker B motif; other site 387093005738 arginine finger; other site 387093005739 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 387093005740 Walker A motif; other site 387093005741 ATP binding site [chemical binding]; other site 387093005742 Walker B motif; other site 387093005743 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 387093005744 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 387093005745 AAA domain; Region: AAA_26; pfam13500 387093005746 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093005747 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 387093005748 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 387093005749 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093005750 chorismate binding enzyme; Region: Chorismate_bind; cl10555 387093005751 Rhomboid family; Region: Rhomboid; cl11446 387093005752 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; cl15754 387093005753 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 387093005754 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 387093005755 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 387093005756 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 387093005757 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 387093005758 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093005759 Walker A/P-loop; other site 387093005760 ATP binding site [chemical binding]; other site 387093005761 Q-loop/lid; other site 387093005762 ABC transporter signature motif; other site 387093005763 Walker B; other site 387093005764 D-loop; other site 387093005765 H-loop/switch region; other site 387093005766 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 387093005767 Hpr binding site; other site 387093005768 active site 387093005769 homohexamer subunit interaction site [polypeptide binding]; other site 387093005770 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 387093005771 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 387093005772 Ligand Binding Site [chemical binding]; other site 387093005773 Molecular Tunnel; other site 387093005774 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 387093005775 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 387093005776 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 387093005777 dimerization interface [polypeptide binding]; other site 387093005778 active site 387093005779 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 387093005780 dimer interface [polypeptide binding]; other site 387093005781 active site 387093005782 Schiff base residues; other site 387093005783 ornithine carbamoyltransferase; Provisional; Region: PRK00779 387093005784 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 387093005785 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093005786 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 387093005787 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 387093005788 FeS/SAM binding site; other site 387093005789 HemN C-terminal domain; Region: HemN_C; pfam06969 387093005790 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 387093005791 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 387093005792 Cysteine-rich domain; Region: CCG; pfam02754 387093005793 Cysteine-rich domain; Region: CCG; pfam02754 387093005794 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 387093005795 dimerization interface [polypeptide binding]; other site 387093005796 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 387093005797 dimer interface [polypeptide binding]; other site 387093005798 phosphorylation site [posttranslational modification] 387093005799 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 387093005800 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093005801 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 387093005802 active site 387093005803 phosphorylation site [posttranslational modification] 387093005804 intermolecular recognition site; other site 387093005805 dimerization interface [polypeptide binding]; other site 387093005806 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 387093005807 DNA binding site [nucleotide binding] 387093005808 Domain of unknown function DUF20; Region: UPF0118; pfam01594 387093005809 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 387093005810 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 387093005811 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 387093005812 Walker A motif; other site 387093005813 ATP binding site [chemical binding]; other site 387093005814 Walker B motif; other site 387093005815 arginine finger; other site 387093005816 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 387093005817 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 387093005818 oligomerization interface [polypeptide binding]; other site 387093005819 active site 387093005820 metal binding site [ion binding]; metal-binding site 387093005821 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 387093005822 substrate binding site [chemical binding]; other site 387093005823 active site 387093005824 catalytic residues [active] 387093005825 heterodimer interface [polypeptide binding]; other site 387093005826 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 387093005827 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 387093005828 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 387093005829 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 387093005830 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 387093005831 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 387093005832 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 387093005833 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 387093005834 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 387093005835 Walker A/P-loop; other site 387093005836 ATP binding site [chemical binding]; other site 387093005837 Q-loop/lid; other site 387093005838 ABC transporter signature motif; other site 387093005839 Walker B; other site 387093005840 D-loop; other site 387093005841 H-loop/switch region; other site 387093005842 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 387093005843 dimer interface [polypeptide binding]; other site 387093005844 conserved gate region; other site 387093005845 putative PBP binding loops; other site 387093005846 ABC-ATPase subunit interface; other site 387093005847 TOBE domain; Region: TOBE_2; cl01440 387093005848 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 387093005849 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 387093005850 Helix-turn-helix domains; Region: HTH; cl00088 387093005851 TOBE domain; Region: TOBE_2; cl01440 387093005852 TOBE domain; Region: TOBE_2; cl01440 387093005853 Probable gene remnant. Similar to the C-terminal region of Desulfotalea psychrophila LSv54 prophage integrase (399 aa) DP0425. 387093005854 Transposase domain (DUF772); Region: DUF772; cl15789 387093005855 Transposase domain (DUF772); Region: DUF772; cl15789 387093005856 TIR domain; Region: TIR_2; cl15770 387093005857 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 387093005858 structural tetrad; other site 387093005859 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 387093005860 structural tetrad; other site 387093005861 FOG: WD40 repeat [General function prediction only]; Region: COG2319 387093005862 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 387093005863 structural tetrad; other site 387093005864 TIR domain; Region: TIR_2; cl15770 387093005865 TIR domain; Region: TIR_2; cl15770 387093005866 TIR domain; Region: TIR_2; cl15770 387093005867 TIR domain; Region: TIR_2; cl15770 387093005868 TIR domain; Region: TIR_2; cl15770 387093005869 TIR domain; Region: TIR_2; cl15770 387093005870 Fic family protein [Function unknown]; Region: COG3177 387093005871 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 387093005872 Fic/DOC family; Region: Fic; cl00960 387093005873 RelB antitoxin; Region: RelB; cl01171 387093005874 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 387093005875 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 387093005876 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 387093005877 alanine racemase; Reviewed; Region: alr; PRK00053 387093005878 active site 387093005879 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 387093005880 dimer interface [polypeptide binding]; other site 387093005881 substrate binding site [chemical binding]; other site 387093005882 catalytic residues [active] 387093005883 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 387093005884 agmatine deiminase; Region: agmatine_aguA; TIGR03380 387093005885 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 387093005886 Predicted amidohydrolase [General function prediction only]; Region: COG0388 387093005887 putative active site; other site 387093005888 catalytic triad [active] 387093005889 putative dimer interface [polypeptide binding]; other site 387093005890 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 387093005891 heme-binding site [chemical binding]; other site 387093005892 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 387093005893 dimer interface [polypeptide binding]; other site 387093005894 ADP-ribose binding site [chemical binding]; other site 387093005895 active site 387093005896 nudix motif; other site 387093005897 metal binding site [ion binding]; metal-binding site 387093005898 Peptidase family M23; Region: Peptidase_M23; pfam01551 387093005899 FAD binding domain; Region: FAD_binding_4; pfam01565 387093005900 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 387093005901 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 387093005902 Competence protein; Region: Competence; cl00471 387093005903 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 387093005904 phage replicative helicase, DnaB family, HK022 subfamily; Region: phage_DnaB; TIGR03600 387093005905 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093005906 Walker A motif; other site 387093005907 Hom_end-associated Hint; Region: Hom_end_hint; pfam05203 387093005908 Homing endonuclease; Region: Hom_end; pfam05204 387093005909 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 387093005910 ATP binding site [chemical binding]; other site 387093005911 Walker B motif; other site 387093005912 DNA binding loops [nucleotide binding] 387093005913 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 387093005914 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 387093005915 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 387093005916 primosome assembly protein PriA; Validated; Region: PRK05580 387093005917 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 387093005918 ATP binding site [chemical binding]; other site 387093005919 putative Mg++ binding site [ion binding]; other site 387093005920 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093005921 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 387093005922 substrate binding site; other site 387093005923 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 387093005924 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 387093005925 NAD binding site [chemical binding]; other site 387093005926 homotetramer interface [polypeptide binding]; other site 387093005927 homodimer interface [polypeptide binding]; other site 387093005928 substrate binding site [chemical binding]; other site 387093005929 active site 387093005930 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 387093005931 S-adenosylmethionine binding site [chemical binding]; other site 387093005932 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 387093005933 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 387093005934 PYR/PP interface [polypeptide binding]; other site 387093005935 dimer interface [polypeptide binding]; other site 387093005936 TPP binding site [chemical binding]; other site 387093005937 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 387093005938 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 387093005939 TPP-binding site [chemical binding]; other site 387093005940 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 387093005941 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093005942 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 387093005943 active site 387093005944 catalytic residues [active] 387093005945 metal binding site [ion binding]; metal-binding site 387093005946 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093005947 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 387093005948 NAD(P) binding site [chemical binding]; other site 387093005949 active site 387093005950 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 387093005951 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 387093005952 inhibitor-cofactor binding pocket; inhibition site 387093005953 pyridoxal 5'-phosphate binding site [chemical binding]; other site 387093005954 catalytic residue [active] 387093005955 GtrA-like protein; Region: GtrA; cl00971 387093005956 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 387093005957 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 387093005958 Ligand binding site; other site 387093005959 Putative Catalytic site; other site 387093005960 DXD motif; other site 387093005961 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 387093005962 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 387093005963 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 387093005964 trimer interface [polypeptide binding]; other site 387093005965 putative metal binding site [ion binding]; other site 387093005966 polyphosphate kinase; Provisional; Region: PRK05443 387093005967 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 387093005968 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 387093005969 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 387093005970 putative domain interface [polypeptide binding]; other site 387093005971 putative active site [active] 387093005972 catalytic site [active] 387093005973 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 387093005974 putative active site [active] 387093005975 catalytic site [active] 387093005976 excinuclease ABC subunit B; Provisional; Region: PRK05298 387093005977 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 387093005978 ATP binding site [chemical binding]; other site 387093005979 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 387093005980 nucleotide binding region [chemical binding]; other site 387093005981 ATP-binding site [chemical binding]; other site 387093005982 Ultra-violet resistance protein B; Region: UvrB; pfam12344 387093005983 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 387093005984 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 387093005985 active site 387093005986 substrate binding site [chemical binding]; other site 387093005987 catalytic site [active] 387093005988 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 387093005989 active site 387093005990 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 387093005991 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 387093005992 substrate binding site [chemical binding]; other site 387093005993 hexamer interface [polypeptide binding]; other site 387093005994 metal binding site [ion binding]; metal-binding site 387093005995 Mechanosensitive ion channel; Region: MS_channel; pfam00924 387093005996 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 387093005997 Ion channel; Region: Ion_trans_2; cl11596 387093005998 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 387093005999 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093006000 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 387093006001 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 387093006002 heterotetramer interface [polypeptide binding]; other site 387093006003 active site pocket [active] 387093006004 cleavage site 387093006005 Protein of unknown function (DUF465); Region: DUF465; cl01070 387093006006 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 387093006007 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 387093006008 ATP binding site [chemical binding]; other site 387093006009 Mg++ binding site [ion binding]; other site 387093006010 motif III; other site 387093006011 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 387093006012 nucleotide binding region [chemical binding]; other site 387093006013 ATP-binding site [chemical binding]; other site 387093006014 DbpA RNA binding domain; Region: DbpA; pfam03880 387093006015 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 387093006016 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 387093006017 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 387093006018 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 387093006019 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 387093006020 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 387093006021 dimer interface [polypeptide binding]; other site 387093006022 active site 387093006023 Phosphopantetheine attachment site; Region: PP-binding; cl09936 387093006024 NosL; Region: NosL; cl01769 387093006025 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 387093006026 PAS fold; Region: PAS_3; pfam08447 387093006027 putative active site [active] 387093006028 heme pocket [chemical binding]; other site 387093006029 NosL; Region: NosL; cl01769 387093006030 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 387093006031 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 387093006032 Walker A/P-loop; other site 387093006033 ATP binding site [chemical binding]; other site 387093006034 Q-loop/lid; other site 387093006035 ABC transporter signature motif; other site 387093006036 Walker B; other site 387093006037 D-loop; other site 387093006038 H-loop/switch region; other site 387093006039 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 387093006040 4Fe-4S binding domain; Region: Fer4_5; pfam12801 387093006041 4Fe-4S binding domain; Region: Fer4; cl02805 387093006042 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 387093006043 Cytochrome c; Region: Cytochrom_C; cl11414 387093006044 Cytochrome c; Region: Cytochrom_C; cl11414 387093006045 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 387093006046 ferredoxin; Validated; Region: PRK07118 387093006047 4Fe-4S binding domain; Region: Fer4; cl02805 387093006048 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 387093006049 nitrous-oxide reductase; Validated; Region: PRK02888 387093006050 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 387093006051 Cytochrome c; Region: Cytochrom_C; cl11414 387093006052 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 387093006053 N-terminal plug; other site 387093006054 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 387093006055 ligand-binding site [chemical binding]; other site 387093006056 Gram-negative bacterial tonB protein; Region: TonB; cl10048 387093006057 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 387093006058 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 387093006059 Beta-Casp domain; Region: Beta-Casp; cl12567 387093006060 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 387093006061 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 387093006062 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 387093006063 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 387093006064 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 387093006065 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 387093006066 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 387093006067 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387093006068 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 387093006069 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 387093006070 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 387093006071 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 387093006072 Cl- selectivity filter; other site 387093006073 Cl- binding residues [ion binding]; other site 387093006074 pore gating glutamate residue; other site 387093006075 dimer interface [polypeptide binding]; other site 387093006076 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 387093006077 dimer interface [polypeptide binding]; other site 387093006078 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 387093006079 ATP binding site [chemical binding]; other site 387093006080 Mg2+ binding site [ion binding]; other site 387093006081 G-X-G motif; other site 387093006082 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093006083 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 387093006084 active site 387093006085 phosphorylation site [posttranslational modification] 387093006086 intermolecular recognition site; other site 387093006087 dimerization interface [polypeptide binding]; other site 387093006088 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 387093006089 DNA binding site [nucleotide binding] 387093006090 Putative small multi-drug export protein; Region: Sm_multidrug_ex; cl01024 387093006091 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 387093006092 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093006093 NAD(P) binding site [chemical binding]; other site 387093006094 active site 387093006095 tellurium resistance terB-like protein; Region: terB_like; cl11965 387093006096 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 387093006097 Sulfatase; Region: Sulfatase; cl10460 387093006098 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 387093006099 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 387093006100 Mg++ binding site [ion binding]; other site 387093006101 putative catalytic motif [active] 387093006102 putative substrate binding site [chemical binding]; other site 387093006103 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 387093006104 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 387093006105 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 387093006106 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 387093006107 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 387093006108 FeS/SAM binding site; other site 387093006109 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 387093006110 Ligand Binding Site [chemical binding]; other site 387093006111 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 387093006112 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 387093006113 DNA binding site [nucleotide binding] 387093006114 Int/Topo IB signature motif; other site 387093006115 active site 387093006116 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 387093006117 putative acyl-acceptor binding pocket; other site 387093006118 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 387093006119 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 387093006120 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 387093006121 FeS/SAM binding site; other site 387093006122 TRAM domain; Region: TRAM; cl01282 387093006123 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 387093006124 NusA N-terminal domain; Region: NusA_N; pfam08529 387093006125 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 387093006126 RNA binding site [nucleotide binding]; other site 387093006127 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 387093006128 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 387093006129 G-X-X-G motif; other site 387093006130 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 387093006131 substrate binding site [chemical binding]; other site 387093006132 dimer interface [polypeptide binding]; other site 387093006133 catalytic triad [active] 387093006134 Phosphoglycerate kinase; Region: PGK; pfam00162 387093006135 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 387093006136 substrate binding site [chemical binding]; other site 387093006137 hinge regions; other site 387093006138 ADP binding site [chemical binding]; other site 387093006139 catalytic site [active] 387093006140 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093006141 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 387093006142 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 387093006143 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 387093006144 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 387093006145 active site 387093006146 (T/H)XGH motif; other site 387093006147 Oligomerisation domain; Region: Oligomerisation; cl00519 387093006148 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 387093006149 arginine-tRNA ligase; Region: PLN02286 387093006150 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 387093006151 active site 387093006152 HIGH motif; other site 387093006153 KMSK motif region; other site 387093006154 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 387093006155 tRNA binding surface [nucleotide binding]; other site 387093006156 anticodon binding site; other site 387093006157 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 387093006158 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 387093006159 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 387093006160 catalytic site [active] 387093006161 G-X2-G-X-G-K; other site 387093006162 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 387093006163 ligand binding site [chemical binding]; other site 387093006164 active site 387093006165 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 387093006166 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 387093006167 UbiA prenyltransferase family; Region: UbiA; cl00337 387093006168 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 387093006169 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093006170 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 387093006171 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 387093006172 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 387093006173 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 387093006174 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 387093006175 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 387093006176 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 387093006177 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 387093006178 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 387093006179 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 387093006180 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 387093006181 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 387093006182 4Fe-4S binding domain; Region: Fer4; cl02805 387093006183 4Fe-4S binding domain; Region: Fer4; cl02805 387093006184 NADH dehydrogenase; Region: NADHdh; cl00469 387093006185 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 387093006186 NADH dehydrogenase subunit G; Validated; Region: PRK08493 387093006187 catalytic loop [active] 387093006188 iron binding site [ion binding]; other site 387093006189 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 387093006190 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 387093006191 molybdopterin cofactor binding site; other site 387093006192 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 387093006193 NADH dehydrogenase subunit G; Validated; Region: PRK08493 387093006194 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 387093006195 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 387093006196 molybdopterin cofactor binding site; other site 387093006197 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 387093006198 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 387093006199 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 387093006200 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093006201 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 387093006202 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 387093006203 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 387093006204 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 387093006205 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 387093006206 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 387093006207 active site residue [active] 387093006208 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 387093006209 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093006210 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093006211 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 387093006212 Transposase IS200 like; Region: Y1_Tnp; cl00848 387093006213 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 387093006214 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 387093006215 Walker A motif; other site 387093006216 ATP binding site [chemical binding]; other site 387093006217 Walker B motif; other site 387093006218 arginine finger; other site 387093006219 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 387093006220 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 387093006221 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 387093006222 regulatory protein interface [polypeptide binding]; other site 387093006223 active site 387093006224 regulatory phosphorylation site [posttranslational modification]; other site 387093006225 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 387093006226 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 387093006227 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 387093006228 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 387093006229 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 387093006230 active site turn [active] 387093006231 phosphorylation site [posttranslational modification] 387093006232 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 387093006233 dimer interface [polypeptide binding]; other site 387093006234 phosphorylation site [posttranslational modification] 387093006235 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 387093006236 ATP binding site [chemical binding]; other site 387093006237 Mg2+ binding site [ion binding]; other site 387093006238 G-X-G motif; other site 387093006239 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093006240 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 387093006241 active site 387093006242 phosphorylation site [posttranslational modification] 387093006243 intermolecular recognition site; other site 387093006244 dimerization interface [polypeptide binding]; other site 387093006245 Helix-turn-helix domains; Region: HTH; cl00088 387093006246 DNA binding site [nucleotide binding] 387093006247 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 387093006248 HPr interaction site; other site 387093006249 glycerol kinase (GK) interaction site [polypeptide binding]; other site 387093006250 active site 387093006251 phosphorylation site [posttranslational modification] 387093006252 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 387093006253 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 387093006254 active site 387093006255 dimer interface [polypeptide binding]; other site 387093006256 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 387093006257 AMP-binding enzyme; Region: AMP-binding; cl15778 387093006258 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 387093006259 endonuclease IV; Provisional; Region: PRK01060 387093006260 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 387093006261 AP (apurinic/apyrimidinic) site pocket; other site 387093006262 DNA interaction; other site 387093006263 Metal-binding active site; metal-binding site 387093006264 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 387093006265 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 387093006266 Protein export membrane protein; Region: SecD_SecF; cl14618 387093006267 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 387093006268 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093006269 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 387093006270 PPIC-type PPIASE domain; Region: Rotamase; cl08278 387093006271 DNA primase, catalytic core; Region: dnaG; TIGR01391 387093006272 CHC2 zinc finger; Region: zf-CHC2; cl15369 387093006273 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 387093006274 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 387093006275 active site 387093006276 metal binding site [ion binding]; metal-binding site 387093006277 interdomain interaction site; other site 387093006278 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 387093006279 binding surface 387093006280 TPR motif; other site 387093006281 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 387093006282 RNA/DNA hybrid binding site [nucleotide binding]; other site 387093006283 active site 387093006284 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 387093006285 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 387093006286 dimerization interface [polypeptide binding]; other site 387093006287 active site 387093006288 metal binding site [ion binding]; metal-binding site 387093006289 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 387093006290 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 387093006291 Tetramer interface [polypeptide binding]; other site 387093006292 active site 387093006293 FMN-binding site [chemical binding]; other site 387093006294 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 387093006295 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 387093006296 RNA/DNA hybrid binding site [nucleotide binding]; other site 387093006297 active site 387093006298 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093006299 Walker A/P-loop; other site 387093006300 ATP binding site [chemical binding]; other site 387093006301 AAA domain; Region: AAA_21; pfam13304 387093006302 Transposase IS200 like; Region: Y1_Tnp; cl00848 387093006303 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 387093006304 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 387093006305 ATP binding site [chemical binding]; other site 387093006306 putative Mg++ binding site [ion binding]; other site 387093006307 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 387093006308 nucleotide binding region [chemical binding]; other site 387093006309 ATP-binding site [chemical binding]; other site 387093006310 RQC domain; Region: RQC; cl09632 387093006311 HRDC domain; Region: HRDC; cl02578 387093006312 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093006313 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 387093006314 active site 387093006315 phosphorylation site [posttranslational modification] 387093006316 intermolecular recognition site; other site 387093006317 dimerization interface [polypeptide binding]; other site 387093006318 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 387093006319 DNA binding site [nucleotide binding] 387093006320 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 387093006321 PhoU domain; Region: PhoU; pfam01895 387093006322 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 387093006323 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 387093006324 Walker A/P-loop; other site 387093006325 ATP binding site [chemical binding]; other site 387093006326 Q-loop/lid; other site 387093006327 ABC transporter signature motif; other site 387093006328 Walker B; other site 387093006329 D-loop; other site 387093006330 H-loop/switch region; other site 387093006331 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 387093006332 dimer interface [polypeptide binding]; other site 387093006333 conserved gate region; other site 387093006334 putative PBP binding loops; other site 387093006335 ABC-ATPase subunit interface; other site 387093006336 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 387093006337 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 387093006338 dimer interface [polypeptide binding]; other site 387093006339 conserved gate region; other site 387093006340 putative PBP binding loops; other site 387093006341 ABC-ATPase subunit interface; other site 387093006342 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 387093006343 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093006344 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 387093006345 active site 387093006346 phosphorylation site [posttranslational modification] 387093006347 intermolecular recognition site; other site 387093006348 dimerization interface [polypeptide binding]; other site 387093006349 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 387093006350 DNA binding site [nucleotide binding] 387093006351 Phosphate transporter family; Region: PHO4; cl00396 387093006352 Phosphate transporter family; Region: PHO4; cl00396 387093006353 Phosphate transporter family; Region: PHO4; cl00396 387093006354 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 387093006355 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 387093006356 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 387093006357 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 387093006358 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 387093006359 tetramerization interface [polypeptide binding]; other site 387093006360 active site 387093006361 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 387093006362 dimer interface [polypeptide binding]; other site 387093006363 [2Fe-2S] cluster binding site [ion binding]; other site 387093006364 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 387093006365 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 387093006366 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 387093006367 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 387093006368 NifU-like domain; Region: NifU; cl00484 387093006369 Thymidylate synthase complementing protein; Region: Thy1; cl03630 387093006370 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 387093006371 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 387093006372 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 387093006373 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 387093006374 hypothetical protein; Reviewed; Region: PRK00024 387093006375 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 387093006376 MPN+ (JAMM) motif; other site 387093006377 Zinc-binding site [ion binding]; other site 387093006378 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 387093006379 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 387093006380 DNA binding site [nucleotide binding] 387093006381 Int/Topo IB signature motif; other site 387093006382 active site 387093006383 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 387093006384 nucleotide binding site [chemical binding]; other site 387093006385 SulA interaction site; other site 387093006386 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 387093006387 DNA polymerase type B, organellar and viral; Region: DNA_pol_B_2; pfam03175 387093006388 Protein of unknown function DUF91; Region: DUF91; cl00709 387093006389 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 387093006390 Probable gene remnant. Similar to the C-terminal region of Thiomicrospira denitrificans ATCC 33889 chromosomal replication initiator protein DnaA (435 aa) Tmden_0001. This CDS appears to have a frameshift mutation following codon 75. 387093006391 Predicted transcriptional regulator [Transcription]; Region: COG2378 387093006392 Helix-turn-helix domains; Region: HTH; cl00088 387093006393 WYL domain; Region: WYL; cl14852 387093006394 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 387093006395 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 387093006396 non-specific DNA binding site [nucleotide binding]; other site 387093006397 salt bridge; other site 387093006398 sequence-specific DNA binding site [nucleotide binding]; other site 387093006399 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387093006400 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 387093006401 ADP-ribose binding site [chemical binding]; other site 387093006402 Probable gene remnant. Similar to the C-terminal region of Synechococcus sp. RS9917 RNA polymerase sigma factor (376 aa) RS9917_06165. 387093006403 Probable gene remnant. Similar to the C-terminal region of Helicobacter pylori 26695 RNA polymerase sigma-70 factor RpoD (671 aa) HP0088. 387093006404 HIRAN domain; Region: HIRAN; cl07418 387093006405 Probable gene remnant. Similar to the N- and C-terminal region of Shewanella denitrificans OS217 transposase, mutator type (400 aa) Sden_3720. This CDS appears to have a frameshift mutation following codon 64. 387093006406 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 387093006407 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093006408 Protein of unknown function (DUF3212); Region: DUF3212; pfam11486 387093006409 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 387093006410 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 387093006411 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 387093006412 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 387093006413 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 387093006414 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 387093006415 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 387093006416 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 387093006417 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 387093006418 putative translocon binding site; other site 387093006419 protein-rRNA interface [nucleotide binding]; other site 387093006420 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 387093006421 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 387093006422 G-X-X-G motif; other site 387093006423 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 387093006424 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 387093006425 23S rRNA interface [nucleotide binding]; other site 387093006426 5S rRNA interface [nucleotide binding]; other site 387093006427 putative antibiotic binding site [chemical binding]; other site 387093006428 L25 interface [polypeptide binding]; other site 387093006429 L27 interface [polypeptide binding]; other site 387093006430 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; cl09943 387093006431 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 387093006432 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 387093006433 KOW motif; Region: KOW; cl00354 387093006434 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 387093006435 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 387093006436 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 387093006437 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 387093006438 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 387093006439 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 387093006440 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 387093006441 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 387093006442 5S rRNA interface [nucleotide binding]; other site 387093006443 L27 interface [polypeptide binding]; other site 387093006444 23S rRNA interface [nucleotide binding]; other site 387093006445 L5 interface [polypeptide binding]; other site 387093006446 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 387093006447 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 387093006448 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 387093006449 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 387093006450 SecY translocase; Region: SecY; pfam00344 387093006451 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 387093006452 active site 387093006453 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 387093006454 rRNA binding site [nucleotide binding]; other site 387093006455 predicted 30S ribosome binding site; other site 387093006456 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 387093006457 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 387093006458 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 387093006459 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 387093006460 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 387093006461 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 387093006462 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 387093006463 RNA binding surface [nucleotide binding]; other site 387093006464 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 387093006465 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 387093006466 alphaNTD homodimer interface [polypeptide binding]; other site 387093006467 alphaNTD - beta interaction site [polypeptide binding]; other site 387093006468 alphaNTD - beta' interaction site [polypeptide binding]; other site 387093006469 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 387093006470 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 387093006471 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 387093006472 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 387093006473 active site residue [active] 387093006474 DoxX; Region: DoxX; cl00976 387093006475 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 387093006476 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 387093006477 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 387093006478 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 387093006479 putative peptidoglycan binding site; other site 387093006480 NlpC/P60 family; Region: NLPC_P60; cl11438 387093006481 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 387093006482 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 387093006483 G1 box; other site 387093006484 putative GEF interaction site [polypeptide binding]; other site 387093006485 GTP/Mg2+ binding site [chemical binding]; other site 387093006486 Switch I region; other site 387093006487 G2 box; other site 387093006488 G3 box; other site 387093006489 Switch II region; other site 387093006490 G4 box; other site 387093006491 G5 box; other site 387093006492 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 387093006493 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 387093006494 flavoprotein, HI0933 family; Region: TIGR00275 387093006495 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093006496 Domain of unknown function DUF77; Region: DUF77; cl00307 387093006497 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 387093006498 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 387093006499 dimerization interface [polypeptide binding]; other site 387093006500 putative ATP binding site [chemical binding]; other site 387093006501 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 387093006502 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 387093006503 recombination factor protein RarA; Reviewed; Region: PRK13342 387093006504 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 387093006505 Walker A motif; other site 387093006506 ATP binding site [chemical binding]; other site 387093006507 Walker B motif; other site 387093006508 arginine finger; other site 387093006509 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 387093006510 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 387093006511 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 387093006512 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 387093006513 RNA binding surface [nucleotide binding]; other site 387093006514 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 387093006515 active site 387093006516 KpsF/GutQ family protein; Region: kpsF; TIGR00393 387093006517 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 387093006518 putative active site [active] 387093006519 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 387093006520 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 387093006521 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 387093006522 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 387093006523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093006524 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 387093006525 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 387093006526 substrate binding site [chemical binding]; other site 387093006527 glutamase interaction surface [polypeptide binding]; other site 387093006528 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 387093006529 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 387093006530 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 387093006531 FeS/SAM binding site; other site 387093006532 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 387093006533 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 387093006534 active site 387093006535 adenylosuccinate lyase; Provisional; Region: PRK08470 387093006536 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 387093006537 tetramer interface [polypeptide binding]; other site 387093006538 active site 387093006539 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 387093006540 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 387093006541 ATP cone domain; Region: ATP-cone; pfam03477 387093006542 Class I ribonucleotide reductase; Region: RNR_I; cd01679 387093006543 active site 387093006544 dimer interface [polypeptide binding]; other site 387093006545 catalytic residues [active] 387093006546 effector binding site; other site 387093006547 R2 peptide binding site; other site 387093006548 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 387093006549 PLD-like domain; Region: PLDc_2; pfam13091 387093006550 putative active site [active] 387093006551 catalytic site [active] 387093006552 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 387093006553 PLD-like domain; Region: PLDc_2; pfam13091 387093006554 putative active site [active] 387093006555 catalytic site [active] 387093006556 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 387093006557 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 387093006558 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 387093006559 substrate binding pocket [chemical binding]; other site 387093006560 membrane-bound complex binding site; other site 387093006561 hinge residues; other site 387093006562 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 387093006563 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 387093006564 dimer interface [polypeptide binding]; other site 387093006565 phosphorylation site [posttranslational modification] 387093006566 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 387093006567 ATP binding site [chemical binding]; other site 387093006568 Mg2+ binding site [ion binding]; other site 387093006569 G-X-G motif; other site 387093006570 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093006571 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 387093006572 active site 387093006573 phosphorylation site [posttranslational modification] 387093006574 intermolecular recognition site; other site 387093006575 dimerization interface [polypeptide binding]; other site 387093006576 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 387093006577 DNA binding site [nucleotide binding] 387093006578 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 387093006579 Sulfatase; Region: Sulfatase; cl10460 387093006580 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 387093006581 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 387093006582 MoxR-like ATPases [General function prediction only]; Region: COG0714 387093006583 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 387093006584 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 387093006585 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 387093006586 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 387093006587 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 387093006588 metal ion-dependent adhesion site (MIDAS); other site 387093006589 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 387093006590 metal ion-dependent adhesion site (MIDAS); other site 387093006591 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 387093006592 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 387093006593 choline dehydrogenase; Validated; Region: PRK02106 387093006594 Oxygen tolerance; Region: BatD; pfam13584 387093006595 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 387093006596 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 387093006597 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 387093006598 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 387093006599 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 387093006600 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 387093006601 TPR motif; other site 387093006602 binding surface 387093006603 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 387093006604 dimer interface [polypeptide binding]; other site 387093006605 Citrate synthase; Region: Citrate_synt; pfam00285 387093006606 active site 387093006607 citrylCoA binding site [chemical binding]; other site 387093006608 NADH binding [chemical binding]; other site 387093006609 cationic pore residues; other site 387093006610 oxalacetate/citrate binding site [chemical binding]; other site 387093006611 coenzyme A binding site [chemical binding]; other site 387093006612 catalytic triad [active] 387093006613 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 387093006614 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 387093006615 dimer interface [polypeptide binding]; other site 387093006616 putative radical transfer pathway; other site 387093006617 diiron center [ion binding]; other site 387093006618 tyrosyl radical; other site 387093006619 Predicted amidohydrolase [General function prediction only]; Region: COG0388 387093006620 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 387093006621 active site 387093006622 catalytic triad [active] 387093006623 dimer interface [polypeptide binding]; other site 387093006624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 387093006625 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 387093006626 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 387093006627 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 387093006628 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 387093006629 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 387093006630 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 387093006631 MoxR-like ATPases [General function prediction only]; Region: COG0714 387093006632 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 387093006633 Walker A motif; other site 387093006634 ATP binding site [chemical binding]; other site 387093006635 Walker B motif; other site 387093006636 arginine finger; other site 387093006637 Oxygen tolerance; Region: BatD; pfam13584 387093006638 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 387093006639 metal ion-dependent adhesion site (MIDAS); other site 387093006640 TPR repeat; Region: TPR_11; pfam13414 387093006641 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 387093006642 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 387093006643 metal ion-dependent adhesion site (MIDAS); other site 387093006644 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 387093006645 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 387093006646 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 387093006647 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 387093006648 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 387093006649 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 387093006650 CoA-binding site [chemical binding]; other site 387093006651 ATP-binding [chemical binding]; other site 387093006652 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 387093006653 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 387093006654 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 387093006655 Sel1 repeat; Region: Sel1; cl02723 387093006656 Sel1 repeat; Region: Sel1; cl02723 387093006657 Sel1 repeat; Region: Sel1; cl02723 387093006658 integrase; Provisional; Region: PRK09692 387093006659 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 387093006660 active site 387093006661 Int/Topo IB signature motif; other site 387093006662 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 387093006663 DNA binding residues [nucleotide binding] 387093006664 bifunctional mannosyl-3-phosphoglycerate synthase/mannosyl-3 phosphoglycerate phosphatase; Provisional; Region: PRK14502 387093006665 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 387093006666 Pseudogene. Similar to transposase, IS30 family. This CDS appears to have a frameshift mutation following codon 200. 387093006667 Probable gene remnant. Similar to the C-terminal region of Psychroflexus torquis ATCC 700755 transposase, IS30 family protein (341 aa) P700755_20104. 387093006668 Probable gene remnant. Similar to the N-terminal region of Psychroflexus torquis ATCC 700755 transposase, IS30 family protein (341 aa) P700755_20104. 387093006669 Probable gene remnant. Similar to the N- and C-terminal region of Desulfovibrio desulfuricans G20 ISPg7, transposase (438 aa) Dde_2849. This CDS appears to have a frameshift mutation following codon 230. 387093006670 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 387093006671 metal binding site [ion binding]; metal-binding site 387093006672 active site 387093006673 I-site; other site 387093006674 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 387093006675 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 387093006676 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 387093006677 active site 387093006678 dimer interface [polypeptide binding]; other site 387093006679 motif 1; other site 387093006680 motif 2; other site 387093006681 motif 3; other site 387093006682 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 387093006683 anticodon binding site; other site 387093006684 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 387093006685 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 387093006686 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 387093006687 Dehydratase family; Region: ILVD_EDD; cl00340 387093006688 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 387093006689 putative active site pocket [active] 387093006690 dimerization interface [polypeptide binding]; other site 387093006691 putative catalytic residue [active] 387093006692 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 387093006693 additional DNA contacts [nucleotide binding]; other site 387093006694 mismatch recognition site; other site 387093006695 active site 387093006696 zinc binding site [ion binding]; other site 387093006697 DNA intercalation site [nucleotide binding]; other site 387093006698 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 387093006699 ATP binding site [chemical binding]; other site 387093006700 Mg2+ binding site [ion binding]; other site 387093006701 G-X-G motif; other site 387093006702 Z1 domain; Region: Z1; pfam10593 387093006703 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 387093006704 AIPR protein; Region: AIPR; pfam10592 387093006705 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 387093006706 active site 387093006707 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 387093006708 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; cl15754 387093006709 cofactor binding site; other site 387093006710 DNA binding site [nucleotide binding] 387093006711 substrate interaction site [chemical binding]; other site 387093006712 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; cl15754 387093006713 DNA binding site [nucleotide binding] 387093006714 substrate interaction site [chemical binding]; other site 387093006715 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 387093006716 non-specific DNA binding site [nucleotide binding]; other site 387093006717 salt bridge; other site 387093006718 sequence-specific DNA binding site [nucleotide binding]; other site 387093006719 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 387093006720 non-specific DNA binding site [nucleotide binding]; other site 387093006721 salt bridge; other site 387093006722 sequence-specific DNA binding site [nucleotide binding]; other site 387093006723 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 387093006724 conjugal transfer relaxase TraI; Provisional; Region: PRK13878 387093006725 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 387093006726 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 387093006727 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 387093006728 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 387093006729 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 387093006730 Int/Topo IB signature motif; other site 387093006731 active site 387093006732 DNA binding site [nucleotide binding] 387093006733 Transposase, Mutator family; Region: Transposase_mut; pfam00872 387093006734 MULE transposase domain; Region: MULE; pfam10551 387093006735 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 387093006736 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 387093006737 active site 387093006738 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 387093006739 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 387093006740 active site 387093006741 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 387093006742 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 387093006743 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 387093006744 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 387093006745 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 387093006746 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 387093006747 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 387093006748 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 387093006749 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 387093006750 active site 387093006751 phosphorylation site [posttranslational modification] 387093006752 intermolecular recognition site; other site 387093006753 dimerization interface [polypeptide binding]; other site 387093006754 Helix-turn-helix domains; Region: HTH; cl00088 387093006755 DNA binding site [nucleotide binding] 387093006756 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 387093006757 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 387093006758 substrate binding pocket [chemical binding]; other site 387093006759 membrane-bound complex binding site; other site 387093006760 hinge residues; other site 387093006761 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 387093006762 dimer interface [polypeptide binding]; other site 387093006763 phosphorylation site [posttranslational modification] 387093006764 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 387093006765 ATP binding site [chemical binding]; other site 387093006766 Mg2+ binding site [ion binding]; other site 387093006767 G-X-G motif; other site 387093006768 Pseudogene. Similar to transposase Tnp. This CDS appears to have a frameshift mutation following codon 88. 387093006769 Probable gene remnant. Similar to the C-terminal region of Yersinia enterocolitica transposase Tnp (400 aa). 387093006770 Probable gene remnant. Similar to the N-terminal region of Yersinia enterocolitica transposase Tnp (400 aa). 387093006771 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 387093006772 Protein of unknown function DUF45; Region: DUF45; cl00636 387093006773 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 387093006774 heme-binding site [chemical binding]; other site 387093006775 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 387093006776 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 387093006777 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 387093006778 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 387093006779 active site 387093006780 putative DNA-binding cleft [nucleotide binding]; other site 387093006781 dimer interface [polypeptide binding]; other site