-- dump date 20140619_115158 -- class Genbank::misc_feature -- table misc_feature_note -- id note 608538000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 608538000002 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 608538000003 Walker A motif; other site 608538000004 ATP binding site [chemical binding]; other site 608538000005 Walker B motif; other site 608538000006 arginine finger; other site 608538000007 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 608538000008 DnaA box-binding interface [nucleotide binding]; other site 608538000009 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 608538000010 Protein of unknown function (DUF1461); Region: DUF1461; cl01862 608538000011 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07666 608538000012 classical (c) SDRs; Region: SDR_c; cd05233 608538000013 NAD(P) binding site [chemical binding]; other site 608538000014 active site 608538000015 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 608538000016 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 608538000017 putative active site [active] 608538000018 metal binding site [ion binding]; metal-binding site 608538000019 homodimer binding site [polypeptide binding]; other site 608538000020 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 608538000021 Flavoprotein; Region: Flavoprotein; pfam02441 608538000022 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 608538000023 Na binding site [ion binding]; other site 608538000024 putative glycosylation site [posttranslational modification]; other site 608538000025 putative glycosylation site [posttranslational modification]; other site 608538000026 aspartate aminotransferase; Provisional; Region: PRK05764 608538000027 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 608538000028 pyridoxal 5'-phosphate binding site [chemical binding]; other site 608538000029 homodimer interface [polypeptide binding]; other site 608538000030 catalytic residue [active] 608538000031 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 608538000032 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 608538000033 NAD binding site [chemical binding]; other site 608538000034 homotetramer interface [polypeptide binding]; other site 608538000035 homodimer interface [polypeptide binding]; other site 608538000036 substrate binding site [chemical binding]; other site 608538000037 active site 608538000038 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 608538000039 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 608538000040 putative active site; other site 608538000041 catalytic residue [active] 608538000042 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 608538000043 Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]; Region: MobB; COG1763 608538000044 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 608538000045 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 608538000046 active site 608538000047 substrate binding site [chemical binding]; other site 608538000048 metal binding site [ion binding]; metal-binding site 608538000049 Protein of unknown function DUF45; Region: DUF45; pfam01863 608538000050 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 608538000051 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 608538000052 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 608538000053 ATP binding site [chemical binding]; other site 608538000054 putative Mg++ binding site [ion binding]; other site 608538000055 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 608538000056 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 608538000057 active site 608538000058 NTP binding site [chemical binding]; other site 608538000059 metal binding triad [ion binding]; metal-binding site 608538000060 antibiotic binding site [chemical binding]; other site 608538000061 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 608538000062 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 608538000063 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 608538000064 HsdM N-terminal domain; Region: HsdM_N; pfam12161 608538000065 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 608538000066 Methyltransferase domain; Region: Methyltransf_26; pfam13659 608538000067 MoxR-like ATPases [General function prediction only]; Region: COG0714 608538000068 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 608538000069 Walker A motif; other site 608538000070 ATP binding site [chemical binding]; other site 608538000071 Walker B motif; other site 608538000072 arginine finger; other site 608538000073 ribosome maturation protein RimP; Reviewed; Region: PRK00092 608538000074 Sm and related proteins; Region: Sm_like; cl00259 608538000075 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 608538000076 putative oligomer interface [polypeptide binding]; other site 608538000077 putative RNA binding site [nucleotide binding]; other site 608538000078 transcription termination factor NusA; Region: NusA; TIGR01953 608538000079 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 608538000080 RNA binding site [nucleotide binding]; other site 608538000081 homodimer interface [polypeptide binding]; other site 608538000082 NusA-like KH domain; Region: KH_5; pfam13184 608538000083 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 608538000084 G-X-X-G motif; other site 608538000085 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 608538000086 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 608538000087 S-adenosylmethionine binding site [chemical binding]; other site 608538000088 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07088 608538000089 ATP cone domain; Region: ATP-cone; pfam03477 608538000090 Class I ribonucleotide reductase; Region: RNR_I; cd01679 608538000091 active site 608538000092 dimer interface [polypeptide binding]; other site 608538000093 catalytic residues [active] 608538000094 effector binding site; other site 608538000095 R2 peptide binding site; other site 608538000096 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 608538000097 dimer interface [polypeptide binding]; other site 608538000098 putative radical transfer pathway; other site 608538000099 diiron center [ion binding]; other site 608538000100 tyrosyl radical; other site 608538000101 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 608538000102 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 608538000103 putative substrate translocation pore; other site 608538000104 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 608538000105 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 608538000106 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 608538000107 putative substrate translocation pore; other site 608538000108 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 608538000109 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 608538000110 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 608538000111 FlxA-like protein; Region: FlxA; pfam14282 608538000112 HlyD family secretion protein; Region: HlyD_3; pfam13437 608538000113 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 608538000114 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 608538000115 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 608538000116 Outer membrane efflux protein; Region: OEP; pfam02321 608538000117 Outer membrane efflux protein; Region: OEP; pfam02321 608538000118 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 608538000119 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 608538000120 HlyD family secretion protein; Region: HlyD_3; pfam13437 608538000121 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 608538000122 Protein export membrane protein; Region: SecD_SecF; cl14618 608538000123 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 608538000124 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 608538000125 minor groove reading motif; other site 608538000126 helix-hairpin-helix signature motif; other site 608538000127 substrate binding pocket [chemical binding]; other site 608538000128 active site 608538000129 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 608538000130 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 608538000131 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 608538000132 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 608538000133 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 608538000134 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 608538000135 putative catalytic cysteine [active] 608538000136 glycogen branching enzyme; Provisional; Region: PRK12313 608538000137 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 608538000138 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 608538000139 active site 608538000140 catalytic site [active] 608538000141 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 608538000142 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 608538000143 MutS domain I; Region: MutS_I; pfam01624 608538000144 MutS domain II; Region: MutS_II; pfam05188 608538000145 MutS domain III; Region: MutS_III; pfam05192 608538000146 MutS domain V; Region: MutS_V; pfam00488 608538000147 Walker A/P-loop; other site 608538000148 ATP binding site [chemical binding]; other site 608538000149 Q-loop/lid; other site 608538000150 ABC transporter signature motif; other site 608538000151 Walker B; other site 608538000152 D-loop; other site 608538000153 H-loop/switch region; other site 608538000154 phosphodiesterase; Provisional; Region: PRK12704 608538000155 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 608538000156 Zn2+ binding site [ion binding]; other site 608538000157 Mg2+ binding site [ion binding]; other site 608538000158 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 608538000159 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 608538000160 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 608538000161 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 608538000162 putative tRNA-binding site [nucleotide binding]; other site 608538000163 B3/4 domain; Region: B3_4; pfam03483 608538000164 tRNA synthetase B5 domain; Region: B5; smart00874 608538000165 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 608538000166 dimer interface [polypeptide binding]; other site 608538000167 motif 1; other site 608538000168 motif 3; other site 608538000169 motif 2; other site 608538000170 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 608538000171 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 608538000172 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 608538000173 Walker A/P-loop; other site 608538000174 ATP binding site [chemical binding]; other site 608538000175 Q-loop/lid; other site 608538000176 ABC transporter signature motif; other site 608538000177 Walker B; other site 608538000178 D-loop; other site 608538000179 H-loop/switch region; other site 608538000180 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 608538000181 ABC-2 type transporter; Region: ABC2_membrane; cl17235 608538000182 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 608538000183 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 608538000184 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 608538000185 intersubunit interface [polypeptide binding]; other site 608538000186 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 608538000187 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 608538000188 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 608538000189 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 608538000190 ABC-ATPase subunit interface; other site 608538000191 dimer interface [polypeptide binding]; other site 608538000192 putative PBP binding regions; other site 608538000193 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 608538000194 ribonuclease HIII; Region: rnhC; TIGR00716 608538000195 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 608538000196 RNA/DNA hybrid binding site [nucleotide binding]; other site 608538000197 active site 608538000198 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 608538000199 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 608538000200 GAF domain; Region: GAF; pfam01590 608538000201 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 608538000202 Walker A motif; other site 608538000203 ATP binding site [chemical binding]; other site 608538000204 Walker B motif; other site 608538000205 arginine finger; other site 608538000206 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 608538000207 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 608538000208 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 608538000209 PAS fold; Region: PAS_3; pfam08447 608538000210 putative active site [active] 608538000211 heme pocket [chemical binding]; other site 608538000212 PAS domain S-box; Region: sensory_box; TIGR00229 608538000213 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 608538000214 putative active site [active] 608538000215 heme pocket [chemical binding]; other site 608538000216 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 608538000217 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 608538000218 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 608538000219 metal binding site [ion binding]; metal-binding site 608538000220 active site 608538000221 I-site; other site 608538000222 Phosphopantetheinyl transferase (holo-ACP synthase) [Lipid metabolism]; Region: AcpS; COG0736 608538000223 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 608538000224 apolar tunnel; other site 608538000225 heme binding site [chemical binding]; other site 608538000226 dimerization interface [polypeptide binding]; other site 608538000227 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 608538000228 heme-binding site [chemical binding]; other site 608538000229 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 608538000230 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 608538000231 intracellular protease, PfpI family; Region: PfpI; TIGR01382 608538000232 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 608538000233 conserved cys residue [active] 608538000234 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 608538000235 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 608538000236 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 608538000237 putative RNA binding site [nucleotide binding]; other site 608538000238 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 608538000239 S-adenosylmethionine binding site [chemical binding]; other site 608538000240 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 608538000241 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 608538000242 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 608538000243 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 608538000244 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 608538000245 ADP binding site [chemical binding]; other site 608538000246 magnesium binding site [ion binding]; other site 608538000247 putative shikimate binding site; other site 608538000248 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 608538000249 active site 608538000250 multimer interface [polypeptide binding]; other site 608538000251 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 608538000252 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 608538000253 FAD binding pocket [chemical binding]; other site 608538000254 conserved FAD binding motif [chemical binding]; other site 608538000255 phosphate binding motif [ion binding]; other site 608538000256 beta-alpha-beta structure motif; other site 608538000257 NAD binding pocket [chemical binding]; other site 608538000258 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 608538000259 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 608538000260 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 608538000261 quinolinate synthetase; Provisional; Region: PRK09375 608538000262 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 608538000263 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 608538000264 PhoH-like protein; Region: PhoH; pfam02562 608538000265 heat shock protein HtpX; Provisional; Region: PRK03982 608538000266 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 608538000267 proposed catalytic triad [active] 608538000268 conserved cys residue [active] 608538000269 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 608538000270 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 608538000271 NAD binding site [chemical binding]; other site 608538000272 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 608538000273 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 608538000274 CutA1 divalent ion tolerance protein; Region: CutA1; pfam03091 608538000275 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 608538000276 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 608538000277 glutamine binding [chemical binding]; other site 608538000278 catalytic triad [active] 608538000279 acetyl-CoA synthetase; Provisional; Region: PRK00174 608538000280 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 608538000281 active site 608538000282 CoA binding site [chemical binding]; other site 608538000283 acyl-activating enzyme (AAE) consensus motif; other site 608538000284 AMP binding site [chemical binding]; other site 608538000285 acetate binding site [chemical binding]; other site 608538000286 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 608538000287 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 608538000288 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 608538000289 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 608538000290 N-terminal plug; other site 608538000291 ligand-binding site [chemical binding]; other site 608538000292 DsrE/DsrF-like family; Region: DrsE; pfam02635 608538000293 diaminopimelate decarboxylase; Region: lysA; TIGR01048 608538000294 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 608538000295 active site 608538000296 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 608538000297 substrate binding site [chemical binding]; other site 608538000298 catalytic residues [active] 608538000299 dimer interface [polypeptide binding]; other site 608538000300 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 608538000301 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 608538000302 Protein of unknown function (DUF815); Region: DUF815; pfam05673 608538000303 Walker A motif; other site 608538000304 ATP binding site [chemical binding]; other site 608538000305 Walker B motif; other site 608538000306 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 608538000307 ATP-NAD kinase; Region: NAD_kinase; pfam01513 608538000308 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 608538000309 dimer interface [polypeptide binding]; other site 608538000310 active site 608538000311 Ferritin-like domain; Region: Ferritin; pfam00210 608538000312 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 608538000313 dinuclear metal binding motif [ion binding]; other site 608538000314 Ferritin-like domain; Region: Ferritin; pfam00210 608538000315 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 608538000316 dinuclear metal binding motif [ion binding]; other site 608538000317 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 608538000318 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 608538000319 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 608538000320 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 608538000321 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 608538000322 benzoate transport; Region: 2A0115; TIGR00895 608538000323 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 608538000324 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 608538000325 P loop; other site 608538000326 Nucleotide binding site [chemical binding]; other site 608538000327 DTAP/Switch II; other site 608538000328 Switch I; other site 608538000329 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 608538000330 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 608538000331 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 608538000332 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 608538000333 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 608538000334 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 608538000335 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 608538000336 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 608538000337 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06916 608538000338 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 608538000339 inhibitor-cofactor binding pocket; inhibition site 608538000340 pyridoxal 5'-phosphate binding site [chemical binding]; other site 608538000341 catalytic residue [active] 608538000342 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 608538000343 Uncharacterized conserved protein [Function unknown]; Region: COG1434 608538000344 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 608538000345 putative active site [active] 608538000346 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 608538000347 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 608538000348 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 608538000349 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 608538000350 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 608538000351 binding surface 608538000352 TPR motif; other site 608538000353 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 608538000354 catalytic core [active] 608538000355 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 608538000356 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 608538000357 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 608538000358 catalytic residue [active] 608538000359 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 608538000360 EamA-like transporter family; Region: EamA; pfam00892 608538000361 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 608538000362 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 608538000363 trimer interface [polypeptide binding]; other site 608538000364 putative metal binding site [ion binding]; other site 608538000365 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 608538000366 Phosphoglycerate kinase; Region: PGK; pfam00162 608538000367 substrate binding site [chemical binding]; other site 608538000368 hinge regions; other site 608538000369 ADP binding site [chemical binding]; other site 608538000370 catalytic site [active] 608538000371 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 608538000372 active site 608538000373 ribulose/triose binding site [chemical binding]; other site 608538000374 phosphate binding site [ion binding]; other site 608538000375 substrate (anthranilate) binding pocket [chemical binding]; other site 608538000376 product (indole) binding pocket [chemical binding]; other site 608538000377 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 608538000378 CPxP motif; other site 608538000379 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 608538000380 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 608538000381 Transglycosylase; Region: Transgly; pfam00912 608538000382 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 608538000383 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14611 608538000384 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 608538000385 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 608538000386 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 608538000387 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 608538000388 active site 608538000389 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 608538000390 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 608538000391 5S rRNA interface [nucleotide binding]; other site 608538000392 CTC domain interface [polypeptide binding]; other site 608538000393 L16 interface [polypeptide binding]; other site 608538000394 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 608538000395 putative active site [active] 608538000396 catalytic residue [active] 608538000397 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 608538000398 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 608538000399 TPP-binding site [chemical binding]; other site 608538000400 dimer interface [polypeptide binding]; other site 608538000401 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 608538000402 PYR/PP interface [polypeptide binding]; other site 608538000403 dimer interface [polypeptide binding]; other site 608538000404 TPP binding site [chemical binding]; other site 608538000405 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 608538000406 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 608538000407 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 608538000408 catalytic loop [active] 608538000409 iron binding site [ion binding]; other site 608538000410 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 608538000411 4Fe-4S binding domain; Region: Fer4; pfam00037 608538000412 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; cd00368 608538000413 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 608538000414 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 608538000415 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 608538000416 putative dimer interface [polypeptide binding]; other site 608538000417 [2Fe-2S] cluster binding site [ion binding]; other site 608538000418 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 608538000419 SLBB domain; Region: SLBB; pfam10531 608538000420 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 608538000421 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 608538000422 Fe-S cluster binding site [ion binding]; other site 608538000423 active site 608538000424 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 608538000425 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 608538000426 homotetramer interface [polypeptide binding]; other site 608538000427 ligand binding site [chemical binding]; other site 608538000428 catalytic site [active] 608538000429 NAD binding site [chemical binding]; other site 608538000430 Isochorismatase family; Region: Isochorismatase; pfam00857 608538000431 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 608538000432 catalytic triad [active] 608538000433 dimer interface [polypeptide binding]; other site 608538000434 conserved cis-peptide bond; other site 608538000435 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 608538000436 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 608538000437 S-adenosylmethionine binding site [chemical binding]; other site 608538000438 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 608538000439 Peptidase family M23; Region: Peptidase_M23; pfam01551 608538000440 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 608538000441 putative acyl-acceptor binding pocket; other site 608538000442 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 608538000443 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 608538000444 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 608538000445 TrkA-C domain; Region: TrkA_C; pfam02080 608538000446 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 608538000447 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 608538000448 DNA binding residues [nucleotide binding] 608538000449 putative dimer interface [polypeptide binding]; other site 608538000450 chaperone protein DnaJ; Provisional; Region: PRK14291 608538000451 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 608538000452 HSP70 interaction site [polypeptide binding]; other site 608538000453 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 608538000454 Zn binding sites [ion binding]; other site 608538000455 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 608538000456 dimer interface [polypeptide binding]; other site 608538000457 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 608538000458 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 608538000459 S-adenosylmethionine binding site [chemical binding]; other site 608538000460 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 608538000461 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 608538000462 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 608538000463 rod shape-determining protein MreC; Provisional; Region: PRK13922 608538000464 rod shape-determining protein MreC; Region: MreC; pfam04085 608538000465 rod shape-determining protein MreB; Provisional; Region: PRK13927 608538000466 MreB and similar proteins; Region: MreB_like; cd10225 608538000467 nucleotide binding site [chemical binding]; other site 608538000468 Mg binding site [ion binding]; other site 608538000469 putative protofilament interaction site [polypeptide binding]; other site 608538000470 RodZ interaction site [polypeptide binding]; other site 608538000471 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 608538000472 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 608538000473 Zn2+ binding site [ion binding]; other site 608538000474 Mg2+ binding site [ion binding]; other site 608538000475 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 608538000476 synthetase active site [active] 608538000477 NTP binding site [chemical binding]; other site 608538000478 metal binding site [ion binding]; metal-binding site 608538000479 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 608538000480 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 608538000481 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 608538000482 Amidohydrolase; Region: Amidohydro_4; pfam13147 608538000483 active site 608538000484 putative substrate binding pocket [chemical binding]; other site 608538000485 dihydrodipicolinate reductase; Provisional; Region: PRK00048 608538000486 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 608538000487 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 608538000488 Archease protein family (MTH1598/TM1083); Region: Archease; pfam01951 608538000489 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 608538000490 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 608538000491 nucleotide binding region [chemical binding]; other site 608538000492 ATP-binding site [chemical binding]; other site 608538000493 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 608538000494 active site 608538000495 SAM binding site [chemical binding]; other site 608538000496 homodimer interface [polypeptide binding]; other site 608538000497 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 608538000498 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 608538000499 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 608538000500 FeS/SAM binding site; other site 608538000501 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 608538000502 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 608538000503 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 608538000504 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 608538000505 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 608538000506 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 608538000507 Cytochrome c; Region: Cytochrom_C; pfam00034 608538000508 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 608538000509 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 608538000510 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 608538000511 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 608538000512 Cu(I) binding site [ion binding]; other site 608538000513 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 608538000514 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 608538000515 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 608538000516 Low-spin heme binding site [chemical binding]; other site 608538000517 D-pathway; other site 608538000518 Putative water exit pathway; other site 608538000519 Binuclear center (active site) [active] 608538000520 K-pathway; other site 608538000521 Putative proton exit pathway; other site 608538000522 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 608538000523 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 608538000524 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 608538000525 interchain domain interface [polypeptide binding]; other site 608538000526 intrachain domain interface; other site 608538000527 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 608538000528 heme bH binding site [chemical binding]; other site 608538000529 Qi binding site; other site 608538000530 heme bL binding site [chemical binding]; other site 608538000531 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N_2; pfam13631 608538000532 Qo binding site; other site 608538000533 4Fe-4S binding domain; Region: Fer4; pfam00037 608538000534 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 608538000535 4Fe-4S binding domain; Region: Fer4; pfam00037 608538000536 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 608538000537 Cytochrome c; Region: Cytochrom_C; cl11414 608538000538 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 608538000539 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 608538000540 Walker A/P-loop; other site 608538000541 ATP binding site [chemical binding]; other site 608538000542 Q-loop/lid; other site 608538000543 ABC transporter signature motif; other site 608538000544 Walker B; other site 608538000545 D-loop; other site 608538000546 H-loop/switch region; other site 608538000547 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 608538000548 NosL; Region: NosL; cl01769 608538000549 nitrous-oxide reductase, Sec-dependent; Region: nitrous_NosZ_Gp; TIGR04246 608538000550 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 608538000551 Cytochrome c; Region: Cytochrom_C; pfam00034 608538000552 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 608538000553 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 608538000554 catalytic site [active] 608538000555 G-X2-G-X-G-K; other site 608538000556 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 608538000557 Found in ATP-dependent protease La (LON); Region: LON; smart00464 608538000558 Pre-mRNA-splicing factor of RES complex; Region: Bud13; pfam09736 608538000559 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 608538000560 Walker A motif; other site 608538000561 ATP binding site [chemical binding]; other site 608538000562 Walker B motif; other site 608538000563 arginine finger; other site 608538000564 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 608538000565 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 608538000566 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 608538000567 Peptidase family M23; Region: Peptidase_M23; pfam01551 608538000568 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 608538000569 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 608538000570 heme-binding site [chemical binding]; other site 608538000571 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 608538000572 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 608538000573 hypothetical protein; Validated; Region: PRK00110 608538000574 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 608538000575 homotrimer interaction site [polypeptide binding]; other site 608538000576 putative active site [active] 608538000577 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 608538000578 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 608538000579 dimer interface [polypeptide binding]; other site 608538000580 putative anticodon binding site; other site 608538000581 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 608538000582 motif 1; other site 608538000583 active site 608538000584 motif 2; other site 608538000585 motif 3; other site 608538000586 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 608538000587 core domain interface [polypeptide binding]; other site 608538000588 delta subunit interface [polypeptide binding]; other site 608538000589 epsilon subunit interface [polypeptide binding]; other site 608538000590 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 608538000591 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 608538000592 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 608538000593 alpha subunit interaction interface [polypeptide binding]; other site 608538000594 Walker A motif; other site 608538000595 ATP binding site [chemical binding]; other site 608538000596 Walker B motif; other site 608538000597 inhibitor binding site; inhibition site 608538000598 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 608538000599 ribonuclease PH; Reviewed; Region: rph; PRK00173 608538000600 Ribonuclease PH; Region: RNase_PH_bact; cd11362 608538000601 hexamer interface [polypeptide binding]; other site 608538000602 active site 608538000603 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 608538000604 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 608538000605 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 608538000606 metal binding site [ion binding]; metal-binding site 608538000607 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 608538000608 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 608538000609 Walker A motif; other site 608538000610 ATP binding site [chemical binding]; other site 608538000611 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 608538000612 Walker B motif; other site 608538000613 arginine finger; other site 608538000614 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 608538000615 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 608538000616 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 608538000617 catalytic core [active] 608538000618 Protein of unknown function (DUF429); Region: DUF429; cl12046 608538000619 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 608538000620 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 608538000621 Ligand Binding Site [chemical binding]; other site 608538000622 K+-transporting ATPase, c chain; Region: KdpC; cl00944 608538000623 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 608538000624 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 608538000625 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 608538000626 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 608538000627 GYD domain; Region: GYD; cl01743 608538000628 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 608538000629 active site 608538000630 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 608538000631 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 608538000632 active site 608538000633 catalytic residue [active] 608538000634 dimer interface [polypeptide binding]; other site 608538000635 argininosuccinate synthase; Provisional; Region: PRK13820 608538000636 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 608538000637 ANP binding site [chemical binding]; other site 608538000638 Substrate Binding Site II [chemical binding]; other site 608538000639 Substrate Binding Site I [chemical binding]; other site 608538000640 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 608538000641 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 608538000642 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 608538000643 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 608538000644 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 608538000645 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 608538000646 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 608538000647 ThiC family; Region: ThiC; pfam01964 608538000648 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 608538000649 Peptidase family M23; Region: Peptidase_M23; pfam01551 608538000650 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 608538000651 CoA binding domain; Region: CoA_binding; pfam02629 608538000652 CoA-ligase; Region: Ligase_CoA; pfam00549 608538000653 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 608538000654 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 608538000655 acyl-activating enzyme (AAE) consensus motif; other site 608538000656 putative AMP binding site [chemical binding]; other site 608538000657 putative active site [active] 608538000658 putative CoA binding site [chemical binding]; other site 608538000659 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 608538000660 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 608538000661 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 608538000662 putative acyl-acceptor binding pocket; other site 608538000663 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 608538000664 active site 608538000665 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 608538000666 putative substrate translocation pore; other site 608538000667 Major Facilitator Superfamily; Region: MFS_1; pfam07690 608538000668 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 608538000669 substrate binding site; other site 608538000670 dimer interface; other site 608538000671 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; cl17853 608538000672 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 608538000673 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 608538000674 Mg++ binding site [ion binding]; other site 608538000675 putative catalytic motif [active] 608538000676 putative substrate binding site [chemical binding]; other site 608538000677 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 608538000678 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; cl17220 608538000679 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 608538000680 Rrf2 family protein; Region: rrf2_super; TIGR00738 608538000681 Transcriptional regulator; Region: Rrf2; pfam02082 608538000682 ATP cone domain; Region: ATP-cone; pfam03477 608538000683 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 608538000684 Class III ribonucleotide reductase; Region: RNR_III; cd01675 608538000685 effector binding site; other site 608538000686 active site 608538000687 Zn binding site [ion binding]; other site 608538000688 glycine loop; other site 608538000689 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 608538000690 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 608538000691 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 608538000692 Permease; Region: Permease; cl00510 608538000693 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 608538000694 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 608538000695 Tetramer interface [polypeptide binding]; other site 608538000696 active site 608538000697 FMN-binding site [chemical binding]; other site 608538000698 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 608538000699 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 608538000700 Putative sterol carrier protein [Lipid metabolism]; Region: COG3255 608538000701 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 608538000702 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 608538000703 dimerization interface 3.5A [polypeptide binding]; other site 608538000704 active site 608538000705 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; cl00290 608538000706 TPR repeat; Region: TPR_11; pfam13414 608538000707 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 608538000708 binding surface 608538000709 TPR motif; other site 608538000710 TPR repeat; Region: TPR_11; pfam13414 608538000711 signal recognition particle protein; Provisional; Region: PRK10867 608538000712 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 608538000713 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 608538000714 P loop; other site 608538000715 GTP binding site [chemical binding]; other site 608538000716 Signal peptide binding domain; Region: SRP_SPB; pfam02978 608538000717 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 608538000718 DNA methylase; Region: N6_N4_Mtase; pfam01555 608538000719 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 608538000720 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 608538000721 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 608538000722 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 608538000723 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 608538000724 catalytic residues [active] 608538000725 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 608538000726 dimerization interface [polypeptide binding]; other site 608538000727 putative DNA binding site [nucleotide binding]; other site 608538000728 putative Zn2+ binding site [ion binding]; other site 608538000729 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 608538000730 Organic solvent tolerance protein; Region: OstA_C; pfam04453 608538000731 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 608538000732 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 608538000733 substrate binding site [chemical binding]; other site 608538000734 hexamer interface [polypeptide binding]; other site 608538000735 metal binding site [ion binding]; metal-binding site 608538000736 PLD-like domain; Region: PLDc_2; pfam13091 608538000737 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cd00138 608538000738 putative active site [active] 608538000739 catalytic site [active] 608538000740 Domain of unknown function DUF87; Region: DUF87; pfam01935 608538000741 AAA-like domain; Region: AAA_10; pfam12846 608538000742 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 608538000743 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 608538000744 Coenzyme A binding pocket [chemical binding]; other site 608538000745 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 608538000746 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 608538000747 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 608538000748 Peptidase family M28; Region: Peptidase_M28; pfam04389 608538000749 metal binding site [ion binding]; metal-binding site 608538000750 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 608538000751 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 608538000752 homodimer interface [polypeptide binding]; other site 608538000753 substrate-cofactor binding pocket; other site 608538000754 catalytic residue [active] 608538000755 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 608538000756 putative ligand binding pocket/active site [active] 608538000757 putative metal binding site [ion binding]; other site 608538000758 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 608538000759 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 608538000760 tandem repeat interface [polypeptide binding]; other site 608538000761 oligomer interface [polypeptide binding]; other site 608538000762 active site residues [active] 608538000763 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 608538000764 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 608538000765 Walker A/P-loop; other site 608538000766 ATP binding site [chemical binding]; other site 608538000767 Q-loop/lid; other site 608538000768 ABC transporter signature motif; other site 608538000769 Walker B; other site 608538000770 D-loop; other site 608538000771 H-loop/switch region; other site 608538000772 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 608538000773 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 608538000774 N-terminal plug; other site 608538000775 ligand-binding site [chemical binding]; other site 608538000776 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 608538000777 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 608538000778 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 608538000779 LAGLIDADG DNA endonuclease family; Region: LAGLIDADG_2; pfam03161 608538000780 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 608538000781 acyl carrier protein; Provisional; Region: acpP; PRK00982 608538000782 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 608538000783 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 608538000784 dimer interface [polypeptide binding]; other site 608538000785 active site 608538000786 ribonuclease III; Reviewed; Region: rnc; PRK00102 608538000787 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 608538000788 dimerization interface [polypeptide binding]; other site 608538000789 active site 608538000790 metal binding site [ion binding]; metal-binding site 608538000791 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 608538000792 dsRNA binding site [nucleotide binding]; other site 608538000793 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cd00188 608538000794 active site 608538000795 metal binding site [ion binding]; metal-binding site 608538000796 N-glycosylase/DNA lyase; Provisional; Region: PRK01229 608538000797 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 608538000798 minor groove reading motif; other site 608538000799 helix-hairpin-helix signature motif; other site 608538000800 substrate binding pocket [chemical binding]; other site 608538000801 active site 608538000802 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 608538000803 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 608538000804 Walker A/P-loop; other site 608538000805 ATP binding site [chemical binding]; other site 608538000806 Q-loop/lid; other site 608538000807 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 608538000808 ABC transporter signature motif; other site 608538000809 Walker B; other site 608538000810 D-loop; other site 608538000811 H-loop/switch region; other site 608538000812 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 608538000813 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 608538000814 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 608538000815 beta subunit interaction interface [polypeptide binding]; other site 608538000816 Walker A motif; other site 608538000817 ATP binding site [chemical binding]; other site 608538000818 Walker B motif; other site 608538000819 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 608538000820 Uncharacterized conserved protein [Function unknown]; Region: COG1801 608538000821 TPR repeat; Region: TPR_11; pfam13414 608538000822 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 608538000823 binding surface 608538000824 TPR motif; other site 608538000825 Tetratricopeptide repeat; Region: TPR_12; pfam13424 608538000826 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 608538000827 binding surface 608538000828 TPR motif; other site 608538000829 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 608538000830 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 608538000831 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2380 608538000832 Predicted permeases [General function prediction only]; Region: COG0679 608538000833 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 608538000834 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 608538000835 NAD binding site [chemical binding]; other site 608538000836 putative substrate binding site 2 [chemical binding]; other site 608538000837 putative substrate binding site 1 [chemical binding]; other site 608538000838 active site 608538000839 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 608538000840 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 608538000841 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 608538000842 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 608538000843 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 608538000844 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 608538000845 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 608538000846 active site 608538000847 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 608538000848 homodimer interface [polypeptide binding]; other site 608538000849 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 608538000850 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 608538000851 DXD motif; other site 608538000852 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 608538000853 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u2; cd10926 608538000854 putative active site [active] 608538000855 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 608538000856 active site 608538000857 hydrophilic channel; other site 608538000858 dimerization interface [polypeptide binding]; other site 608538000859 catalytic residues [active] 608538000860 active site lid [active] 608538000861 4-alpha-glucanotransferase; Provisional; Region: PRK14508 608538000862 Uncharacterized protein family, UPF0114; Region: UPF0114; pfam03350 608538000863 Transcriptional regulator [Transcription]; Region: LysR; COG0583 608538000864 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 608538000865 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 608538000866 putative dimerization interface [polypeptide binding]; other site 608538000867 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 608538000868 active site 608538000869 catalytic residues [active] 608538000870 metal binding site [ion binding]; metal-binding site 608538000871 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 608538000872 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 608538000873 Cytochrome c; Region: Cytochrom_C; pfam00034 608538000874 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 608538000875 ResB-like family; Region: ResB; pfam05140 608538000876 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 608538000877 PLD-like domain; Region: PLDc_2; pfam13091 608538000878 putative homodimer interface [polypeptide binding]; other site 608538000879 putative active site [active] 608538000880 catalytic site [active] 608538000881 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 608538000882 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 608538000883 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 608538000884 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 608538000885 nucleotide binding region [chemical binding]; other site 608538000886 ATP-binding site [chemical binding]; other site 608538000887 Transposase IS200 like; Region: Y1_Tnp; pfam01797 608538000888 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 608538000889 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 608538000890 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 608538000891 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 608538000892 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 608538000893 active site 608538000894 NTP binding site [chemical binding]; other site 608538000895 metal binding triad [ion binding]; metal-binding site 608538000896 antibiotic binding site [chemical binding]; other site 608538000897 Uncharacterized conserved protein [Function unknown]; Region: COG2361 608538000898 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 608538000899 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 608538000900 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 608538000901 active site 608538000902 HIGH motif; other site 608538000903 nucleotide binding site [chemical binding]; other site 608538000904 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 608538000905 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 608538000906 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 608538000907 active site 608538000908 KMSKS motif; other site 608538000909 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 608538000910 tRNA binding surface [nucleotide binding]; other site 608538000911 anticodon binding site; other site 608538000912 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 608538000913 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 608538000914 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 608538000915 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 608538000916 NAD(P) binding site [chemical binding]; other site 608538000917 active site 608538000918 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 608538000919 feedback inhibition sensing region; other site 608538000920 homohexameric interface [polypeptide binding]; other site 608538000921 nucleotide binding site [chemical binding]; other site 608538000922 N-acetyl-L-glutamate binding site [chemical binding]; other site 608538000923 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 608538000924 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 608538000925 active site 608538000926 DNA binding site [nucleotide binding] 608538000927 Int/Topo IB signature motif; other site 608538000928 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 608538000929 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 608538000930 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 608538000931 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 608538000932 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 608538000933 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 608538000934 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 608538000935 FeS/SAM binding site; other site 608538000936 Fumarase C-terminus; Region: Fumerase_C; cl00795 608538000937 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 608538000938 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 608538000939 Walker A motif; other site 608538000940 ATP binding site [chemical binding]; other site 608538000941 Walker B motif; other site 608538000942 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 608538000943 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 608538000944 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 608538000945 GTP-binding protein YchF; Reviewed; Region: PRK09601 608538000946 YchF GTPase; Region: YchF; cd01900 608538000947 G1 box; other site 608538000948 GTP/Mg2+ binding site [chemical binding]; other site 608538000949 Switch I region; other site 608538000950 G2 box; other site 608538000951 Switch II region; other site 608538000952 G3 box; other site 608538000953 G4 box; other site 608538000954 G5 box; other site 608538000955 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 608538000956 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 608538000957 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 608538000958 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 608538000959 putative active site [active] 608538000960 putative metal binding site [ion binding]; other site 608538000961 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 608538000962 Catalytic domain of Protein Kinases; Region: PKc; cd00180 608538000963 active site 608538000964 ATP binding site [chemical binding]; other site 608538000965 substrate binding site [chemical binding]; other site 608538000966 activation loop (A-loop); other site 608538000967 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 608538000968 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 608538000969 active site 608538000970 NAD binding site [chemical binding]; other site 608538000971 metal binding site [ion binding]; metal-binding site 608538000972 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 608538000973 SurA N-terminal domain; Region: SurA_N_3; pfam13624 608538000974 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 608538000975 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 608538000976 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 608538000977 active site 608538000978 oxalacetate binding site [chemical binding]; other site 608538000979 citrylCoA binding site [chemical binding]; other site 608538000980 coenzyme A binding site [chemical binding]; other site 608538000981 catalytic triad [active] 608538000982 homoserine dehydrogenase; Provisional; Region: PRK06349 608538000983 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 608538000984 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 608538000985 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 608538000986 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 608538000987 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 608538000988 active site 608538000989 DNA repair protein RadA; Provisional; Region: PRK11823 608538000990 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 608538000991 Walker A motif/ATP binding site; other site 608538000992 ATP binding site [chemical binding]; other site 608538000993 Walker B motif; other site 608538000994 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 608538000995 pseudo gene. This gene has an internal deletion.; transposase 608538000996 FeoA domain; Region: FeoA; pfam04023 608538000997 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 608538000998 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 608538000999 G1 box; other site 608538001000 GTP/Mg2+ binding site [chemical binding]; other site 608538001001 Switch I region; other site 608538001002 G2 box; other site 608538001003 G3 box; other site 608538001004 Switch II region; other site 608538001005 G4 box; other site 608538001006 G5 box; other site 608538001007 Nucleoside recognition; Region: Gate; pfam07670 608538001008 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 608538001009 Nucleoside recognition; Region: Gate; pfam07670 608538001010 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 608538001011 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 608538001012 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 608538001013 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 608538001014 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 608538001015 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 608538001016 active site 608538001017 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 608538001018 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 608538001019 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 608538001020 putative substrate binding pocket [chemical binding]; other site 608538001021 dimer interface [polypeptide binding]; other site 608538001022 phosphate binding site [ion binding]; other site 608538001023 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 608538001024 L-aspartate oxidase; Provisional; Region: PRK06175 608538001025 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 608538001026 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 608538001027 tetramer interfaces [polypeptide binding]; other site 608538001028 binuclear metal-binding site [ion binding]; other site 608538001029 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 608538001030 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 608538001031 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 608538001032 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 608538001033 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 608538001034 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 608538001035 tRNA; other site 608538001036 putative tRNA binding site [nucleotide binding]; other site 608538001037 putative NADP binding site [chemical binding]; other site 608538001038 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 608538001039 AsnC family; Region: AsnC_trans_reg; pfam01037 608538001040 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 608538001041 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 608538001042 hinge; other site 608538001043 active site 608538001044 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 608538001045 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 608538001046 putative dimer interface [polypeptide binding]; other site 608538001047 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 608538001048 Isochorismatase family; Region: Isochorismatase; pfam00857 608538001049 catalytic triad [active] 608538001050 metal binding site [ion binding]; metal-binding site 608538001051 conserved cis-peptide bond; other site 608538001052 Sugar fermentation stimulation protein; Region: SfsA; cl00647 608538001053 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 608538001054 G2 box; other site 608538001055 Switch I region; other site 608538001056 G3 box; other site 608538001057 Switch II region; other site 608538001058 GTP/Mg2+ binding site [chemical binding]; other site 608538001059 G4 box; other site 608538001060 G5 box; other site 608538001061 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 608538001062 HEAT repeats; Region: HEAT_2; pfam13646 608538001063 Ferrochelatase; Region: Ferrochelatase; pfam00762 608538001064 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 608538001065 C-terminal domain interface [polypeptide binding]; other site 608538001066 active site 608538001067 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 608538001068 active site 608538001069 N-terminal domain interface [polypeptide binding]; other site 608538001070 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 608538001071 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 608538001072 Walker A/P-loop; other site 608538001073 ATP binding site [chemical binding]; other site 608538001074 Q-loop/lid; other site 608538001075 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 608538001076 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 608538001077 ABC transporter signature motif; other site 608538001078 Walker B; other site 608538001079 D-loop; other site 608538001080 H-loop/switch region; other site 608538001081 Fructose-1,6-bisphosphatase; Region: FBPase_3; pfam01950 608538001082 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 608538001083 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]; Region: eRF1; COG1503 608538001084 Uncharacterized conserved protein [Function unknown]; Region: COG1432 608538001085 LabA_like proteins; Region: LabA_like/DUF88; cl10034 608538001086 putative metal binding site [ion binding]; other site 608538001087 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 608538001088 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 608538001089 active site 608538001090 Riboflavin kinase; Region: Flavokinase; pfam01687 608538001091 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 608538001092 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 608538001093 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 608538001094 Walker A motif; other site 608538001095 ATP binding site [chemical binding]; other site 608538001096 Walker B motif; other site 608538001097 arginine finger; other site 608538001098 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 608538001099 Putative sterol carrier protein [Lipid metabolism]; Region: COG3255 608538001100 Roadblock/LC7 domain [Function unknown]; Region: COG4831 608538001101 Roadblock/LC7 domain [Function unknown]; Region: COG4831 608538001102 Hemerythrin-like domain; Region: Hr-like; cd12108 608538001103 Fe binding site [ion binding]; other site 608538001104 K+ potassium transporter; Region: K_trans; pfam02705 608538001105 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 608538001106 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 608538001107 dimer interface [polypeptide binding]; other site 608538001108 anticodon binding site; other site 608538001109 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 608538001110 homodimer interface [polypeptide binding]; other site 608538001111 motif 1; other site 608538001112 active site 608538001113 motif 2; other site 608538001114 GAD domain; Region: GAD; pfam02938 608538001115 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 608538001116 motif 3; other site 608538001117 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 608538001118 active site 608538001119 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 608538001120 histidinol dehydrogenase; Region: hisD; TIGR00069 608538001121 NAD binding site [chemical binding]; other site 608538001122 dimerization interface [polypeptide binding]; other site 608538001123 product binding site; other site 608538001124 substrate binding site [chemical binding]; other site 608538001125 zinc binding site [ion binding]; other site 608538001126 catalytic residues [active] 608538001127 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 608538001128 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 608538001129 pyridoxal 5'-phosphate binding site [chemical binding]; other site 608538001130 homodimer interface [polypeptide binding]; other site 608538001131 catalytic residue [active] 608538001132 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 608538001133 FOG: CBS domain [General function prediction only]; Region: COG0517 608538001134 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 608538001135 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 608538001136 active site 608538001137 Zn binding site [ion binding]; other site 608538001138 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 608538001139 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 608538001140 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 608538001141 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 608538001142 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 608538001143 Domain of unknown function DUF20; Region: UPF0118; pfam01594 608538001144 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 608538001145 TPR motif; other site 608538001146 binding surface 608538001147 TPR repeat; Region: TPR_11; pfam13414 608538001148 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 608538001149 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 608538001150 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 608538001151 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 608538001152 pyridoxal 5'-phosphate binding site [chemical binding]; other site 608538001153 catalytic residue [active] 608538001154 ribonuclease R; Region: RNase_R; TIGR02063 608538001155 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 608538001156 RNB domain; Region: RNB; pfam00773 608538001157 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 608538001158 RNA binding site [nucleotide binding]; other site 608538001159 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 608538001160 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 608538001161 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 608538001162 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 608538001163 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 608538001164 dimer interface [polypeptide binding]; other site 608538001165 conserved gate region; other site 608538001166 putative PBP binding loops; other site 608538001167 ABC-ATPase subunit interface; other site 608538001168 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 608538001169 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 608538001170 FAD binding pocket [chemical binding]; other site 608538001171 FAD binding motif [chemical binding]; other site 608538001172 phosphate binding motif [ion binding]; other site 608538001173 beta-alpha-beta structure motif; other site 608538001174 NAD binding pocket [chemical binding]; other site 608538001175 Iron coordination center [ion binding]; other site 608538001176 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 608538001177 Lumazine binding domain; Region: Lum_binding; pfam00677 608538001178 Lumazine binding domain; Region: Lum_binding; pfam00677 608538001179 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 608538001180 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 608538001181 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 608538001182 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 608538001183 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 608538001184 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 608538001185 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 608538001186 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 608538001187 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 608538001188 dimer interface [polypeptide binding]; other site 608538001189 ssDNA binding site [nucleotide binding]; other site 608538001190 tetramer (dimer of dimers) interface [polypeptide binding]; other site 608538001191 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 608538001192 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 608538001193 Coenzyme A binding pocket [chemical binding]; other site 608538001194 bifunctional 3'-5' exonuclease/DNA polymerase; Provisional; Region: PRK14975 608538001195 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 608538001196 catalytic site [active] 608538001197 putative active site [active] 608538001198 putative substrate binding site [chemical binding]; other site 608538001199 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 608538001200 active site 608538001201 DNA binding site [nucleotide binding] 608538001202 catalytic site [active] 608538001203 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 608538001204 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 608538001205 putative active site [active] 608538001206 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 608538001207 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 608538001208 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 608538001209 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 608538001210 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 608538001211 Cytochrome c; Region: Cytochrom_C; cl11414 608538001212 hypothetical protein; pseudo gene. The initial codon of this gene is missing probably by a mutation. 608538001213 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 608538001214 putative hydrophobic ligand binding site [chemical binding]; other site 608538001215 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 608538001216 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 608538001217 XdhC Rossmann domain; Region: XdhC_C; pfam13478 608538001218 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 608538001219 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 608538001220 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 608538001221 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 608538001222 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 608538001223 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 608538001224 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 608538001225 catalytic loop [active] 608538001226 iron binding site [ion binding]; other site 608538001227 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 608538001228 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 608538001229 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 608538001230 N-terminal plug; other site 608538001231 ligand-binding site [chemical binding]; other site 608538001232 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 608538001233 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 608538001234 membrane-bound complex binding site; other site 608538001235 hinge residues; other site 608538001236 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 608538001237 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 608538001238 structural tetrad; other site 608538001239 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 608538001240 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 608538001241 Trp docking motif [polypeptide binding]; other site 608538001242 dimer interface [polypeptide binding]; other site 608538001243 active site 608538001244 small subunit binding site [polypeptide binding]; other site 608538001245 metal-transporting ATPase; pseudo gene. This gene contains three frameshift mutations. 608538001246 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 608538001247 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_5; cd06338 608538001248 putative ligand binding site [chemical binding]; other site 608538001249 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 608538001250 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 608538001251 TM-ABC transporter signature motif; other site 608538001252 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 608538001253 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 608538001254 TM-ABC transporter signature motif; other site 608538001255 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 608538001256 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 608538001257 Walker A/P-loop; other site 608538001258 ATP binding site [chemical binding]; other site 608538001259 Q-loop/lid; other site 608538001260 ABC transporter signature motif; other site 608538001261 Walker B; other site 608538001262 D-loop; other site 608538001263 H-loop/switch region; other site 608538001264 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 608538001265 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 608538001266 Walker A/P-loop; other site 608538001267 ATP binding site [chemical binding]; other site 608538001268 Q-loop/lid; other site 608538001269 ABC transporter signature motif; other site 608538001270 Walker B; other site 608538001271 D-loop; other site 608538001272 H-loop/switch region; other site 608538001273 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 608538001274 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 608538001275 Radical SAM superfamily; Region: Radical_SAM; pfam04055 608538001276 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 608538001277 FeS/SAM binding site; other site 608538001278 PSP1 C-terminal conserved region; Region: PSP1; cl00770 608538001279 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 608538001280 4Fe-4S binding domain; Region: Fer4; pfam00037 608538001281 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 608538001282 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 608538001283 NADH:ubiquinone oxidoreductase subunit 11 or 4L (chain K) [Energy production and conversion]; Region: NuoK; COG0713 608538001284 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 608538001285 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 608538001286 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 608538001287 NADH:ubiquinone oxidoreductase subunit 4 (chain M) [Energy production and conversion]; Region: NuoM; COG1008 608538001288 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 608538001289 NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; Region: NuoN; COG1007 608538001290 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 608538001291 NADH:ubiquinone oxidoreductase subunit 3 (chain A) [Energy production and conversion]; Region: NuoA; COG0838 608538001292 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 608538001293 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 608538001294 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 608538001295 NADH dehydrogenase subunit D; Validated; Region: PRK06075 608538001296 NADH:ubiquinone oxidoreductase subunit 1 (chain H) [Energy production and conversion]; Region: NuoH; COG1005 608538001297 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 608538001298 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 608538001299 substrate binding site [chemical binding]; other site 608538001300 glutamase interaction surface [polypeptide binding]; other site 608538001301 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 608538001302 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 608538001303 ATP binding site [chemical binding]; other site 608538001304 Mg2+ binding site [ion binding]; other site 608538001305 G-X-G motif; other site 608538001306 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 608538001307 ATP binding site [chemical binding]; other site 608538001308 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 608538001309 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 608538001310 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 608538001311 heterodimer interface [polypeptide binding]; other site 608538001312 active site 608538001313 FMN binding site [chemical binding]; other site 608538001314 homodimer interface [polypeptide binding]; other site 608538001315 substrate binding site [chemical binding]; other site 608538001316 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 608538001317 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 608538001318 GDP-binding site [chemical binding]; other site 608538001319 ACT binding site; other site 608538001320 IMP binding site; other site 608538001321 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 608538001322 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 608538001323 HflX GTPase family; Region: HflX; cd01878 608538001324 G1 box; other site 608538001325 GTP/Mg2+ binding site [chemical binding]; other site 608538001326 Switch I region; other site 608538001327 G2 box; other site 608538001328 G3 box; other site 608538001329 Switch II region; other site 608538001330 G4 box; other site 608538001331 G5 box; other site 608538001332 bacterial Hfq-like; Region: Hfq; cd01716 608538001333 hexamer interface [polypeptide binding]; other site 608538001334 Sm1 motif; other site 608538001335 RNA binding site [nucleotide binding]; other site 608538001336 Sm2 motif; other site 608538001337 acetylornithine aminotransferase; Provisional; Region: PRK02627 608538001338 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 608538001339 inhibitor-cofactor binding pocket; inhibition site 608538001340 pyridoxal 5'-phosphate binding site [chemical binding]; other site 608538001341 catalytic residue [active] 608538001342 NAD synthetase; Provisional; Region: PRK13981 608538001343 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 608538001344 multimer interface [polypeptide binding]; other site 608538001345 active site 608538001346 catalytic triad [active] 608538001347 protein interface 1 [polypeptide binding]; other site 608538001348 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 608538001349 homodimer interface [polypeptide binding]; other site 608538001350 NAD binding pocket [chemical binding]; other site 608538001351 ATP binding pocket [chemical binding]; other site 608538001352 Mg binding site [ion binding]; other site 608538001353 active-site loop [active] 608538001354 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 608538001355 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 608538001356 Walker A motif; other site 608538001357 ATP binding site [chemical binding]; other site 608538001358 Walker B motif; other site 608538001359 Preprotein translocase subunit; Region: YajC; cl00806 608538001360 type II secretion system protein D; Region: type_II_gspD; TIGR02517 608538001361 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 608538001362 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 608538001363 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14953 608538001364 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 608538001365 Walker A motif; other site 608538001366 ATP binding site [chemical binding]; other site 608538001367 Walker B motif; other site 608538001368 arginine finger; other site 608538001369 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 608538001370 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 608538001371 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 608538001372 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 608538001373 putative active site [active] 608538001374 catalytic triad [active] 608538001375 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 608538001376 hypothetical protein; Reviewed; Region: PRK12497 608538001377 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 608538001378 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 608538001379 putative ribose interaction site [chemical binding]; other site 608538001380 putative ADP binding site [chemical binding]; other site 608538001381 aspartate kinase; Reviewed; Region: PRK06635 608538001382 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 608538001383 putative nucleotide binding site [chemical binding]; other site 608538001384 putative catalytic residues [active] 608538001385 putative Mg ion binding site [ion binding]; other site 608538001386 putative aspartate binding site [chemical binding]; other site 608538001387 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 608538001388 putative allosteric regulatory site; other site 608538001389 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 608538001390 putative allosteric regulatory residue; other site 608538001391 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 608538001392 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 608538001393 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 608538001394 Walker A motif; other site 608538001395 ATP binding site [chemical binding]; other site 608538001396 Walker B motif; other site 608538001397 arginine finger; other site 608538001398 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 608538001399 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 608538001400 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 608538001401 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 608538001402 MoaE interaction surface [polypeptide binding]; other site 608538001403 MoeB interaction surface [polypeptide binding]; other site 608538001404 thiocarboxylated glycine; other site 608538001405 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 608538001406 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 608538001407 Active Sites [active] 608538001408 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 608538001409 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 608538001410 active site 608538001411 SAM binding site [chemical binding]; other site 608538001412 homodimer interface [polypeptide binding]; other site 608538001413 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 608538001414 ATP-sulfurylase; Region: ATPS; cd00517 608538001415 active site 608538001416 HXXH motif; other site 608538001417 flexible loop; other site 608538001418 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 608538001419 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 608538001420 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 608538001421 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 608538001422 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 608538001423 V4R domain; Region: V4R; pfam02830 608538001424 NifU-like domain; Region: NifU; cl00484 608538001425 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 608538001426 iron-sulfur cluster [ion binding]; other site 608538001427 [2Fe-2S] cluster binding site [ion binding]; other site 608538001428 TPR repeat; Region: TPR_11; pfam13414 608538001429 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 608538001430 binding surface 608538001431 TPR motif; other site 608538001432 Tetratricopeptide repeat; Region: TPR_12; pfam13424 608538001433 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 608538001434 This group of endopeptidases include HupW enzymes that are specific to the cyanobacterial hydrogenase and are involved in the C-terminal cleavage of the hydrogenase large subunit precursor protein. Cyanobacterial nickel-iron (NiFe)-hydrogenases are found...; Region: H2MP_Cyano-H2up; cd06063 608538001435 nickel binding site [ion binding]; other site 608538001436 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 608538001437 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 608538001438 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 608538001439 Protein of unknown function (DUF1641); Region: DUF1641; pfam07849 608538001440 Protein of unknown function (DUF1641); Region: DUF1641; pfam07849 608538001441 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 608538001442 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 608538001443 ABC-type Co2+ transport system, permease component [Inorganic ion transport and metabolism]; Region: CbiM; cl00397 608538001444 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 608538001445 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 608538001446 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 608538001447 Walker A/P-loop; other site 608538001448 ATP binding site [chemical binding]; other site 608538001449 Q-loop/lid; other site 608538001450 ABC transporter signature motif; other site 608538001451 Walker B; other site 608538001452 D-loop; other site 608538001453 H-loop/switch region; other site 608538001454 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 608538001455 active site 608538001456 catalytic residues [active] 608538001457 metal binding site [ion binding]; metal-binding site 608538001458 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 608538001459 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 608538001460 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 608538001461 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 608538001462 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 608538001463 PhoU domain; Region: PhoU; pfam01895 608538001464 PhoU domain; Region: PhoU; pfam01895 608538001465 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 608538001466 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 608538001467 dimerization interface [polypeptide binding]; other site 608538001468 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 608538001469 dimer interface [polypeptide binding]; other site 608538001470 phosphorylation site [posttranslational modification] 608538001471 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 608538001472 ATP binding site [chemical binding]; other site 608538001473 Mg2+ binding site [ion binding]; other site 608538001474 G-X-G motif; other site 608538001475 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 608538001476 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 608538001477 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 608538001478 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 608538001479 AAA domain; Region: AAA_32; pfam13654 608538001480 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 608538001481 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 608538001482 Uncharacterized conserved protein [Function unknown]; Region: COG0011 608538001483 YceG-like family; Region: YceG; pfam02618 608538001484 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 608538001485 dimerization interface [polypeptide binding]; other site 608538001486 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 608538001487 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 608538001488 Protein of unknown function (DUF1122); Region: DUF1122; cl01800 608538001489 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 608538001490 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 608538001491 dimer interface [polypeptide binding]; other site 608538001492 motif 1; other site 608538001493 active site 608538001494 motif 2; other site 608538001495 motif 3; other site 608538001496 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 608538001497 anticodon binding site; other site 608538001498 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 608538001499 dimer interface [polypeptide binding]; other site 608538001500 active site 608538001501 Schiff base residues; other site 608538001502 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14331 608538001503 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 608538001504 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 608538001505 FeS/SAM binding site; other site 608538001506 TRAM domain; Region: TRAM; pfam01938 608538001507 Bifunctional nuclease; Region: DNase-RNase; pfam02577 608538001508 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 608538001509 Peptidase family M50; Region: Peptidase_M50; pfam02163 608538001510 active site 608538001511 putative substrate binding region [chemical binding]; other site 608538001512 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 608538001513 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 608538001514 NAD(P) binding site [chemical binding]; other site 608538001515 homotetramer interface [polypeptide binding]; other site 608538001516 homodimer interface [polypeptide binding]; other site 608538001517 active site 608538001518 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 608538001519 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 608538001520 active site 608538001521 metal binding site [ion binding]; metal-binding site 608538001522 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 608538001523 domain I; other site 608538001524 DNA binding groove [nucleotide binding] 608538001525 phosphate binding site [ion binding]; other site 608538001526 domain II; other site 608538001527 domain III; other site 608538001528 nucleotide binding site [chemical binding]; other site 608538001529 catalytic site [active] 608538001530 domain IV; other site 608538001531 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 608538001532 bacterial Hfq-like; Region: Hfq; cd01716 608538001533 hexamer interface [polypeptide binding]; other site 608538001534 Sm1 motif; other site 608538001535 RNA binding site [nucleotide binding]; other site 608538001536 Sm2 motif; other site 608538001537 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 608538001538 dimer interface [polypeptide binding]; other site 608538001539 [2Fe-2S] cluster binding site [ion binding]; other site 608538001540 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 608538001541 Part of AAA domain; Region: AAA_19; pfam13245 608538001542 Family description; Region: UvrD_C_2; pfam13538 608538001543 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 608538001544 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 608538001545 Protein of unknown function (DUF554); Region: DUF554; pfam04474 608538001546 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 608538001547 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 608538001548 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 608538001549 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 608538001550 G1 box; other site 608538001551 GTP/Mg2+ binding site [chemical binding]; other site 608538001552 Switch I region; other site 608538001553 G2 box; other site 608538001554 G3 box; other site 608538001555 Switch II region; other site 608538001556 G4 box; other site 608538001557 G5 box; other site 608538001558 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 608538001559 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 608538001560 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 608538001561 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 608538001562 DNA-binding site [nucleotide binding]; DNA binding site 608538001563 RNA-binding motif; other site 608538001564 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 608538001565 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 608538001566 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 608538001567 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 608538001568 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 608538001569 putative NAD(P) binding site [chemical binding]; other site 608538001570 active site 608538001571 Predicted transcriptional regulators [Transcription]; Region: COG1318 608538001572 probable regulatory domain; Region: near_KaiC_dom; TIGR03879 608538001573 MTH865-like family; Region: MTH865; cl01962 608538001574 Family of unknown function (DUF490); Region: DUF490; pfam04357 608538001575 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 608538001576 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 608538001577 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 608538001578 putative active site [active] 608538001579 catalytic triad [active] 608538001580 putative dimer interface [polypeptide binding]; other site 608538001581 EamA-like transporter family; Region: EamA; cl17759 608538001582 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 608538001583 putative catalytic site [active] 608538001584 putative phosphate binding site [ion binding]; other site 608538001585 active site 608538001586 metal binding site A [ion binding]; metal-binding site 608538001587 DNA binding site [nucleotide binding] 608538001588 putative AP binding site [nucleotide binding]; other site 608538001589 putative metal binding site B [ion binding]; other site 608538001590 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 608538001591 IHF dimer interface [polypeptide binding]; other site 608538001592 IHF - DNA interface [nucleotide binding]; other site 608538001593 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 608538001594 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 608538001595 catalytic residues [active] 608538001596 catalytic nucleophile [active] 608538001597 Recombinase; Region: Recombinase; pfam07508 608538001598 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 608538001599 prophage Ht1 608538001600 RecT family; Region: RecT; pfam03837 608538001601 Cyclin-dependent kinase regulatory subunit; Region: CKS; cl03104 608538001602 Predicted transcriptional regulator [Transcription]; Region: COG2932 608538001603 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 608538001604 sequence-specific DNA binding site [nucleotide binding]; other site 608538001605 salt bridge; other site 608538001606 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 608538001607 Catalytic site [active] 608538001608 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 608538001609 sequence-specific DNA binding site [nucleotide binding]; other site 608538001610 salt bridge; other site 608538001611 CHC2 zinc finger; Region: zf-CHC2; cl17510 608538001612 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 608538001613 Part of AAA domain; Region: AAA_19; pfam13245 608538001614 Family description; Region: UvrD_C_2; pfam13538 608538001615 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cl17280 608538001616 active site 608538001617 putative DNA-binding cleft [nucleotide binding]; other site 608538001618 dimer interface [polypeptide binding]; other site 608538001619 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 608538001620 Active Sites [active] 608538001621 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 608538001622 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 608538001623 active site 608538001624 metal binding site [ion binding]; metal-binding site 608538001625 pseudo gene. This gene has 5'-terminal deletion.; transposase-like fragment 608538001626 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 608538001627 Terminase-like family; Region: Terminase_6; pfam03237 608538001628 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 608538001629 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 608538001630 sugar binding site [chemical binding]; other site 608538001631 replication factor A; Reviewed; Region: PRK08402 608538001632 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 608538001633 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 608538001634 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 608538001635 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 608538001636 catalytic residue [active] 608538001637 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 608538001638 putative DNA binding surface [nucleotide binding]; other site 608538001639 DNA polymerase III beta subunit; Region: POL3Bc; smart00480 608538001640 dimer interface [polypeptide binding]; other site 608538001641 beta-clamp/clamp loader binding surface; other site 608538001642 beta-clamp/translesion DNA polymerase binding surface; other site 608538001643 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 608538001644 DHH family; Region: DHH; pfam01368 608538001645 FOG: CBS domain [General function prediction only]; Region: COG0517 608538001646 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 608538001647 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 608538001648 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 608538001649 active site 608538001650 NTP binding site [chemical binding]; other site 608538001651 metal binding triad [ion binding]; metal-binding site 608538001652 Predicted permease; Region: DUF318; cl17795 608538001653 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]; Region: COG2018 608538001654 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 608538001655 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 608538001656 Conserved hypothetical ATP binding protein; Region: ATP_bind_1; pfam03029 608538001657 G1 box; other site 608538001658 GTP/Mg2+ binding site [chemical binding]; other site 608538001659 G2 box; other site 608538001660 Switch I region; other site 608538001661 G3 box; other site 608538001662 Switch II region; other site 608538001663 G4 box; other site 608538001664 G5 box; other site 608538001665 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 608538001666 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 608538001667 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 608538001668 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 608538001669 23S rRNA interface [nucleotide binding]; other site 608538001670 L3 interface [polypeptide binding]; other site 608538001671 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 608538001672 substrate binding site [chemical binding]; other site 608538001673 lipoyl synthase; Provisional; Region: PRK05481 608538001674 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 608538001675 FeS/SAM binding site; other site 608538001676 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 608538001677 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 608538001678 FAD binding pocket [chemical binding]; other site 608538001679 FAD binding motif [chemical binding]; other site 608538001680 phosphate binding motif [ion binding]; other site 608538001681 beta-alpha-beta structure motif; other site 608538001682 NAD binding pocket [chemical binding]; other site 608538001683 Iron coordination center [ion binding]; other site 608538001684 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 608538001685 Outer membrane efflux protein; Region: OEP; pfam02321 608538001686 Outer membrane efflux protein; Region: OEP; pfam02321 608538001687 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 608538001688 catalytic residues [active] 608538001689 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 608538001690 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 608538001691 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 608538001692 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 608538001693 TPR motif; other site 608538001694 binding surface 608538001695 Tetratricopeptide repeat; Region: TPR_12; pfam13424 608538001696 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 608538001697 binding surface 608538001698 TPR motif; other site 608538001699 Tetratricopeptide repeat; Region: TPR_12; pfam13424 608538001700 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 608538001701 binding surface 608538001702 TPR motif; other site 608538001703 Tetratricopeptide repeat; Region: TPR_12; pfam13424 608538001704 Protein of unknown function (DUF503); Region: DUF503; pfam04456 608538001705 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 608538001706 MPN+ (JAMM) motif; other site 608538001707 Zinc-binding site [ion binding]; other site 608538001708 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 608538001709 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 608538001710 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 608538001711 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 608538001712 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 608538001713 putative amphipathic alpha helix; other site 608538001714 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 608538001715 peptide chain release factor 2; Validated; Region: prfB; PRK00578 608538001716 This domain is found in peptide chain release factors; Region: PCRF; smart00937 608538001717 RF-1 domain; Region: RF-1; pfam00472 608538001718 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 608538001719 GTP1/OBG; Region: GTP1_OBG; pfam01018 608538001720 Obg GTPase; Region: Obg; cd01898 608538001721 G1 box; other site 608538001722 GTP/Mg2+ binding site [chemical binding]; other site 608538001723 Switch I region; other site 608538001724 G2 box; other site 608538001725 G3 box; other site 608538001726 Switch II region; other site 608538001727 G4 box; other site 608538001728 G5 box; other site 608538001729 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 608538001730 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 608538001731 catalytic residues [active] 608538001732 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 608538001733 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 608538001734 catalytic residue [active] 608538001735 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 608538001736 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 608538001737 HIGH motif; other site 608538001738 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 608538001739 active site 608538001740 KMSKS motif; other site 608538001741 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 608538001742 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 608538001743 active site 608538001744 homodimer interface [polypeptide binding]; other site 608538001745 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 608538001746 active site 608538001747 tetramer interface; other site 608538001748 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 608538001749 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 608538001750 Surface antigen; Region: Bac_surface_Ag; pfam01103 608538001751 aspartate aminotransferase; Provisional; Region: PRK05764 608538001752 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 608538001753 pyridoxal 5'-phosphate binding site [chemical binding]; other site 608538001754 homodimer interface [polypeptide binding]; other site 608538001755 catalytic residue [active] 608538001756 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 608538001757 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 608538001758 ligand binding site [chemical binding]; other site 608538001759 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 608538001760 dimer interface [polypeptide binding]; other site 608538001761 putative tRNA-binding site [nucleotide binding]; other site 608538001762 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 608538001763 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 608538001764 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 608538001765 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 608538001766 dimer interface [polypeptide binding]; other site 608538001767 putative functional site; other site 608538001768 putative MPT binding site; other site 608538001769 S-adenosylmethionine synthetase; Provisional; Region: PRK04439 608538001770 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 608538001771 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 608538001772 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 608538001773 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 608538001774 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 608538001775 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 608538001776 triosephosphate isomerase; Provisional; Region: PRK14565 608538001777 substrate binding site [chemical binding]; other site 608538001778 dimer interface [polypeptide binding]; other site 608538001779 catalytic triad [active] 608538001780 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 608538001781 UbiA prenyltransferase family; Region: UbiA; pfam01040 608538001782 replicative DNA helicase; Region: DnaB; TIGR00665 608538001783 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 608538001784 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 608538001785 Walker A motif; other site 608538001786 ATP binding site [chemical binding]; other site 608538001787 Walker B motif; other site 608538001788 DNA binding loops [nucleotide binding] 608538001789 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 608538001790 FAD binding site [chemical binding]; other site 608538001791 GYD domain; Region: GYD; pfam08734 608538001792 Cytochrome c; Region: Cytochrom_C; pfam00034 608538001793 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 608538001794 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 608538001795 Ligand Binding Site [chemical binding]; other site 608538001796 TIGR00269 family protein; Region: TIGR00269 608538001797 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 608538001798 active site residue [active] 608538001799 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 608538001800 N-acetyl-D-glucosamine binding site [chemical binding]; other site 608538001801 catalytic residue [active] 608538001802 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 608538001803 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 608538001804 S-adenosylmethionine binding site [chemical binding]; other site 608538001805 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 608538001806 Domain of unknown function DUF21; Region: DUF21; pfam01595 608538001807 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 608538001808 Transporter associated domain; Region: CorC_HlyC; smart01091 608538001809 hypothetical protein; Reviewed; Region: PRK00024 608538001810 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 608538001811 MPN+ (JAMM) motif; other site 608538001812 Zinc-binding site [ion binding]; other site 608538001813 phosphoketolase; pseudo gene. This gene contains a frameshift mutation. 608538001814 Acetokinase family; Region: Acetate_kinase; cl17229 608538001815 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 608538001816 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 608538001817 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 608538001818 homodimer interface [polypeptide binding]; other site 608538001819 NADP binding site [chemical binding]; other site 608538001820 substrate binding site [chemical binding]; other site 608538001821 Methyltransferase domain; Region: Methyltransf_31; pfam13847 608538001822 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 608538001823 S-adenosylmethionine binding site [chemical binding]; other site 608538001824 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 608538001825 Cytochrome c; Region: Cytochrom_C; cl11414 608538001826 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 608538001827 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 608538001828 Nucleotide binding site [chemical binding]; other site 608538001829 DTAP/Switch II; other site 608538001830 Switch I; other site 608538001831 amino acid transporter; Region: 2A0306; TIGR00909 608538001832 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 608538001833 Staphylococcal nuclease homologues; Region: SNc; smart00318 608538001834 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 608538001835 Catalytic site; other site 608538001836 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 608538001837 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 608538001838 PYR/PP interface [polypeptide binding]; other site 608538001839 dimer interface [polypeptide binding]; other site 608538001840 TPP binding site [chemical binding]; other site 608538001841 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 608538001842 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 608538001843 TPP-binding site [chemical binding]; other site 608538001844 dimer interface [polypeptide binding]; other site 608538001845 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 608538001846 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 608538001847 putative valine binding site [chemical binding]; other site 608538001848 dimer interface [polypeptide binding]; other site 608538001849 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 608538001850 multifunctional aminopeptidase A; Provisional; Region: PRK00913 608538001851 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 608538001852 interface (dimer of trimers) [polypeptide binding]; other site 608538001853 Substrate-binding/catalytic site; other site 608538001854 Zn-binding sites [ion binding]; other site 608538001855 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 608538001856 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 608538001857 dimerization interface [polypeptide binding]; other site 608538001858 active site 608538001859 Domain of unknown function DUF29; Region: DUF29; pfam01724 608538001860 glycogen synthase; Provisional; Region: glgA; PRK00654 608538001861 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 608538001862 ADP-binding pocket [chemical binding]; other site 608538001863 homodimer interface [polypeptide binding]; other site 608538001864 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 608538001865 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 608538001866 active site 608538001867 nucleotide binding site [chemical binding]; other site 608538001868 HIGH motif; other site 608538001869 KMSKS motif; other site 608538001870 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 608538001871 active site 608538001872 NTP binding site [chemical binding]; other site 608538001873 metal binding triad [ion binding]; metal-binding site 608538001874 antibiotic binding site [chemical binding]; other site 608538001875 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 608538001876 Recombination protein O N terminal; Region: RecO_N; pfam11967 608538001877 Pantoate-beta-alanine ligase; Region: PanC; cd00560 608538001878 pantoate--beta-alanine ligase; Region: panC; TIGR00018 608538001879 active site 608538001880 ATP-binding site [chemical binding]; other site 608538001881 pantoate-binding site; other site 608538001882 HXXH motif; other site 608538001883 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 608538001884 homopentamer interface [polypeptide binding]; other site 608538001885 active site 608538001886 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 608538001887 putative RNA binding site [nucleotide binding]; other site 608538001888 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 608538001889 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 608538001890 catalytic residues [active] 608538001891 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 608538001892 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 608538001893 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 608538001894 DNA binding residues [nucleotide binding] 608538001895 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 608538001896 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 608538001897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 608538001898 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 608538001899 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 608538001900 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 608538001901 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 608538001902 radical SAM protein, TIGR01212 family; Region: TIGR01212 608538001903 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 608538001904 FeS/SAM binding site; other site 608538001905 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 608538001906 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 608538001907 dihydroorotase; Validated; Region: pyrC; PRK09357 608538001908 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 608538001909 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 608538001910 active site 608538001911 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 608538001912 prephenate dehydrogenase; Validated; Region: PRK08507 608538001913 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 608538001914 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 608538001915 dimer interface [polypeptide binding]; other site 608538001916 ABC-ATPase subunit interface; other site 608538001917 putative PBP binding loops; other site 608538001918 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 608538001919 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 608538001920 Bacterial sugar transferase; Region: Bac_transf; pfam02397 608538001921 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 608538001922 tetramerization interface [polypeptide binding]; other site 608538001923 active site 608538001924 D-allose kinase; Provisional; Region: PRK09698 608538001925 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 608538001926 nucleotide binding site [chemical binding]; other site 608538001927 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 608538001928 Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like; cd12825 608538001929 Cl binding site [ion binding]; other site 608538001930 oligomer interface [polypeptide binding]; other site 608538001931 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 608538001932 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 608538001933 Maf-like protein; Region: Maf; pfam02545 608538001934 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 608538001935 active site 608538001936 dimer interface [polypeptide binding]; other site 608538001937 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 608538001938 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 608538001939 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 608538001940 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 608538001941 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 608538001942 cation transporting ATPase; pseudo gene. This gene contains a frameshift mutation. 608538001943 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 608538001944 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 608538001945 CPxP motif; other site 608538001946 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 608538001947 S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK01236 608538001948 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 608538001949 S-adenosylmethionine binding site [chemical binding]; other site 608538001950 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 608538001951 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 608538001952 active site 608538001953 (T/H)XGH motif; other site 608538001954 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 608538001955 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 608538001956 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 608538001957 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 608538001958 active site 608538001959 phosphorylation site [posttranslational modification] 608538001960 intermolecular recognition site; other site 608538001961 dimerization interface [polypeptide binding]; other site 608538001962 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 608538001963 DNA binding site [nucleotide binding] 608538001964 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 608538001965 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 608538001966 active site 608538001967 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 608538001968 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 608538001969 substrate binding site [chemical binding]; other site 608538001970 ribosome recycling factor; Reviewed; Region: frr; PRK00083 608538001971 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 608538001972 hinge region; other site 608538001973 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 608538001974 putative nucleotide binding site [chemical binding]; other site 608538001975 uridine monophosphate binding site [chemical binding]; other site 608538001976 homohexameric interface [polypeptide binding]; other site 608538001977 elongation factor Ts; Provisional; Region: tsf; PRK09377 608538001978 UBA/TS-N domain; Region: UBA; pfam00627 608538001979 putative protein-protein interaction site; other site 608538001980 GFP-loop; other site 608538001981 Elongation factor TS; Region: EF_TS; pfam00889 608538001982 Elongation factor TS; Region: EF_TS; pfam00889 608538001983 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 608538001984 rRNA interaction site [nucleotide binding]; other site 608538001985 S8 interaction site; other site 608538001986 putative laminin-1 binding site; other site 608538001987 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 608538001988 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 608538001989 dimerization interface [polypeptide binding]; other site 608538001990 domain crossover interface; other site 608538001991 redox-dependent activation switch; other site 608538001992 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 608538001993 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 608538001994 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 608538001995 UbiA prenyltransferase family; Region: UbiA; pfam01040 608538001996 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 608538001997 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 608538001998 nucleoside/Zn binding site; other site 608538001999 dimer interface [polypeptide binding]; other site 608538002000 catalytic motif [active] 608538002001 lipoyl synthase; Provisional; Region: PRK12928 608538002002 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 608538002003 FeS/SAM binding site; other site 608538002004 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 608538002005 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 608538002006 Substrate binding site; other site 608538002007 Cupin domain; Region: Cupin_2; cl17218 608538002008 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 608538002009 active site 608538002010 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 608538002011 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 608538002012 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 608538002013 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 608538002014 RNA binding surface [nucleotide binding]; other site 608538002015 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 608538002016 active site 608538002017 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional; Region: PRK14494 608538002018 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 608538002019 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 608538002020 Walker A/P-loop; other site 608538002021 ATP binding site [chemical binding]; other site 608538002022 Q-loop/lid; other site 608538002023 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 608538002024 ABC transporter signature motif; other site 608538002025 Walker B; other site 608538002026 D-loop; other site 608538002027 H-loop/switch region; other site 608538002028 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 608538002029 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 608538002030 active site 608538002031 metal binding site [ion binding]; metal-binding site 608538002032 DNA binding site [nucleotide binding] 608538002033 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 608538002034 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 608538002035 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 608538002036 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 608538002037 RNA binding site [nucleotide binding]; other site 608538002038 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 608538002039 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 608538002040 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 608538002041 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 608538002042 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 608538002043 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 608538002044 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 608538002045 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 608538002046 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 608538002047 23S rRNA interface [nucleotide binding]; other site 608538002048 5S rRNA interface [nucleotide binding]; other site 608538002049 L27 interface [polypeptide binding]; other site 608538002050 L5 interface [polypeptide binding]; other site 608538002051 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 608538002052 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 608538002053 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 608538002054 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 608538002055 23S rRNA binding site [nucleotide binding]; other site 608538002056 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 608538002057 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 608538002058 SecY translocase; Region: SecY; pfam00344 608538002059 adenylate kinase; Reviewed; Region: adk; PRK00279 608538002060 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 608538002061 AMP-binding site [chemical binding]; other site 608538002062 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 608538002063 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 608538002064 active site 608538002065 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 608538002066 rRNA binding site [nucleotide binding]; other site 608538002067 predicted 30S ribosome binding site; other site 608538002068 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 608538002069 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 608538002070 30S ribosomal protein S13; Region: bact_S13; TIGR03631 608538002071 30S ribosomal protein S11; Validated; Region: PRK05309 608538002072 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 608538002073 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 608538002074 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 608538002075 RNA binding surface [nucleotide binding]; other site 608538002076 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 608538002077 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 608538002078 alphaNTD homodimer interface [polypeptide binding]; other site 608538002079 alphaNTD - beta interaction site [polypeptide binding]; other site 608538002080 alphaNTD - beta' interaction site [polypeptide binding]; other site 608538002081 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 608538002082 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 608538002083 YGGT family; Region: YGGT; pfam02325 608538002084 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 608538002085 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 608538002086 RNA binding surface [nucleotide binding]; other site 608538002087 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 608538002088 S-adenosylmethionine binding site [chemical binding]; other site 608538002089 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 608538002090 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 608538002091 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 608538002092 Catalytic site [active] 608538002093 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 608538002094 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14467 608538002095 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 608538002096 FeS/SAM binding site; other site 608538002097 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 608538002098 MoaE interaction surface [polypeptide binding]; other site 608538002099 MoeB interaction surface [polypeptide binding]; other site 608538002100 thiocarboxylated glycine; other site 608538002101 Methyltransferase domain; Region: Methyltransf_31; pfam13847 608538002102 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 608538002103 S-adenosylmethionine binding site [chemical binding]; other site 608538002104 excinuclease ABC subunit B; Provisional; Region: PRK05298 608538002105 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 608538002106 ATP binding site [chemical binding]; other site 608538002107 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 608538002108 putative Mg++ binding site [ion binding]; other site 608538002109 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 608538002110 nucleotide binding region [chemical binding]; other site 608538002111 ATP-binding site [chemical binding]; other site 608538002112 Ultra-violet resistance protein B; Region: UvrB; pfam12344 608538002113 UvrB/uvrC motif; Region: UVR; pfam02151 608538002114 potential protein location (conserved hypothetical protein [Hydrogenobacter thermophilus TK-6]) that overlaps RNA (tRNA-F) 608538002115 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 608538002116 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 608538002117 minor groove reading motif; other site 608538002118 helix-hairpin-helix signature motif; other site 608538002119 substrate binding pocket [chemical binding]; other site 608538002120 active site 608538002121 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 608538002122 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 608538002123 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 608538002124 S-adenosylmethionine binding site [chemical binding]; other site 608538002125 spermidine synthase; Provisional; Region: PRK00811 608538002126 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 608538002127 S-adenosylmethionine binding site [chemical binding]; other site 608538002128 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 608538002129 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 608538002130 active site 608538002131 HIGH motif; other site 608538002132 KMSKS motif; other site 608538002133 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 608538002134 anticodon binding site; other site 608538002135 tRNA binding surface [nucleotide binding]; other site 608538002136 Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]; Region: GlnE; COG1391 608538002137 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 608538002138 metal binding triad; other site 608538002139 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 608538002140 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 608538002141 metal binding triad; other site 608538002142 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 608538002143 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 608538002144 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 608538002145 putative metal binding site; other site 608538002146 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 608538002147 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 608538002148 poxB regulator PoxA; Provisional; Region: PRK09350 608538002149 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 608538002150 motif 1; other site 608538002151 dimer interface [polypeptide binding]; other site 608538002152 active site 608538002153 motif 2; other site 608538002154 motif 3; other site 608538002155 nickel responsive regulator; Provisional; Region: PRK00630 608538002156 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 608538002157 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 608538002158 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 608538002159 dimer interface [polypeptide binding]; other site 608538002160 catalytic triad [active] 608538002161 peroxidatic and resolving cysteines [active] 608538002162 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 608538002163 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 608538002164 active site 608538002165 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 608538002166 dimer interface [polypeptide binding]; other site 608538002167 substrate binding site [chemical binding]; other site 608538002168 catalytic residues [active] 608538002169 aconitate hydratase; Validated; Region: PRK07229 608538002170 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 608538002171 substrate binding site [chemical binding]; other site 608538002172 ligand binding site [chemical binding]; other site 608538002173 Bacterial Aconitase-like swivel domain. Aconitase (aconitate hydratase or citrate hydrolyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Cis-aconitate is formed as an intermediate product during the course...; Region: AcnA_Bact_Swivel; cd01579 608538002174 substrate binding site [chemical binding]; other site 608538002175 malate dehydrogenase; Reviewed; Region: PRK06223 608538002176 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 608538002177 NAD(P) binding site [chemical binding]; other site 608538002178 dimer interface [polypeptide binding]; other site 608538002179 tetramer (dimer of dimers) interface [polypeptide binding]; other site 608538002180 substrate binding site [chemical binding]; other site 608538002181 fumarate hydratase; Provisional; Region: PRK06246 608538002182 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 608538002183 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 608538002184 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 608538002185 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 608538002186 Trehalose phosphorylase (TP) reversibly catalyzes trehalose synthesis and degradation from alpha-glucose-1-phosphate (alpha-Glc-1-P) and glucose. The catalyzing activity includes the phosphorolysis of trehalose, which produce alpha-Glc-1-P and glucose; Region: GT1_Trehalose_phosphorylase; cd03792 608538002187 putative bifunctional trehalose-6-phosphate synthase/HAD hydrolase subfamily IIB; Provisional; Region: PRK14501 608538002188 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 608538002189 active site 608538002190 homotetramer interface [polypeptide binding]; other site 608538002191 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 608538002192 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 608538002193 Active_site [active] 608538002194 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]; Region: COG4277 608538002195 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 608538002196 FeS/SAM binding site; other site 608538002197 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 608538002198 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 608538002199 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 608538002200 trimer interface [polypeptide binding]; other site 608538002201 active site 608538002202 UDP-GlcNAc binding site [chemical binding]; other site 608538002203 lipid binding site [chemical binding]; lipid-binding site 608538002204 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 608538002205 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 608538002206 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 608538002207 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 608538002208 Walker A motif; other site 608538002209 ATP binding site [chemical binding]; other site 608538002210 Walker B motif; other site 608538002211 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 608538002212 Clp protease; Region: CLP_protease; pfam00574 608538002213 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 608538002214 oligomer interface [polypeptide binding]; other site 608538002215 active site residues [active] 608538002216 trigger factor; Region: tig; TIGR00115 608538002217 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 608538002218 anthranilate synthase component I; Provisional; Region: PRK13565 608538002219 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 608538002220 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 608538002221 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional; Region: PRK04338 608538002222 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 608538002223 S-adenosylmethionine binding site [chemical binding]; other site 608538002224 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 608538002225 substrate binding site [chemical binding]; other site 608538002226 active site 608538002227 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 608538002228 phosphoglycolate phosphatase; Provisional; Region: PRK13222 608538002229 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 608538002230 motif II; other site 608538002231 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 608538002232 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 608538002233 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 608538002234 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 608538002235 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 608538002236 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 608538002237 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 608538002238 Zn2+ binding site [ion binding]; other site 608538002239 Mg2+ binding site [ion binding]; other site 608538002240 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 608538002241 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 608538002242 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 608538002243 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 608538002244 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 608538002245 dimerization interface [polypeptide binding]; other site 608538002246 ATP binding site [chemical binding]; other site 608538002247 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 608538002248 dimerization interface [polypeptide binding]; other site 608538002249 ATP binding site [chemical binding]; other site 608538002250 lipoprotein signal peptidase; Provisional; Region: PRK14779 608538002251 lipoprotein signal peptidase; Provisional; Region: PRK14787 608538002252 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 608538002253 recombinase A; Provisional; Region: recA; PRK09354 608538002254 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 608538002255 hexamer interface [polypeptide binding]; other site 608538002256 Walker A motif; other site 608538002257 ATP binding site [chemical binding]; other site 608538002258 Walker B motif; other site 608538002259 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 608538002260 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 608538002261 Walker A motif; other site 608538002262 ATP binding site [chemical binding]; other site 608538002263 Walker B motif; other site 608538002264 cytidylate kinase; Provisional; Region: cmk; PRK00023 608538002265 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 608538002266 CMP-binding site; other site 608538002267 The sites determining sugar specificity; other site 608538002268 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 608538002269 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 608538002270 NAD(P) binding site [chemical binding]; other site 608538002271 catalytic residues [active] 608538002272 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 608538002273 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 608538002274 DNA binding residues [nucleotide binding] 608538002275 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 608538002276 thiamine phosphate binding site [chemical binding]; other site 608538002277 active site 608538002278 pyrophosphate binding site [ion binding]; other site 608538002279 5'-3' exonuclease; Region: 53EXOc; smart00475 608538002280 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 608538002281 active site 608538002282 metal binding site 1 [ion binding]; metal-binding site 608538002283 putative 5' ssDNA interaction site; other site 608538002284 metal binding site 3; metal-binding site 608538002285 metal binding site 2 [ion binding]; metal-binding site 608538002286 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 608538002287 putative DNA binding site [nucleotide binding]; other site 608538002288 putative metal binding site [ion binding]; other site 608538002289 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 608538002290 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 608538002291 active site 608538002292 NTP binding site [chemical binding]; other site 608538002293 metal binding triad [ion binding]; metal-binding site 608538002294 antibiotic binding site [chemical binding]; other site 608538002295 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 608538002296 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 608538002297 dimer interface [polypeptide binding]; other site 608538002298 active site residues [active] 608538002299 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 608538002300 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 608538002301 putative phosphate acyltransferase; Provisional; Region: PRK05331 608538002302 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 608538002303 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 608538002304 dimer interface [polypeptide binding]; other site 608538002305 active site 608538002306 CoA binding pocket [chemical binding]; other site 608538002307 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 608538002308 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 608538002309 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 608538002310 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 608538002311 Soluble P-type ATPase [General function prediction only]; Region: COG4087 608538002312 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 608538002313 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 608538002314 DEAD-like helicases superfamily; Region: DEXDc; smart00487 608538002315 ATP binding site [chemical binding]; other site 608538002316 Mg++ binding site [ion binding]; other site 608538002317 motif III; other site 608538002318 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 608538002319 nucleotide binding region [chemical binding]; other site 608538002320 ATP-binding site [chemical binding]; other site 608538002321 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 608538002322 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 608538002323 sulfite oxidase; Provisional; Region: PLN00177 608538002324 Moco binding site; other site 608538002325 metal coordination site [ion binding]; other site 608538002326 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 608538002327 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 608538002328 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 608538002329 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 608538002330 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 608538002331 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 608538002332 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 608538002333 intersubunit interface [polypeptide binding]; other site 608538002334 active site 608538002335 catalytic residue [active] 608538002336 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 608538002337 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 608538002338 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 608538002339 2-isopropylmalate synthase; Validated; Region: PRK00915 608538002340 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 608538002341 active site 608538002342 catalytic residues [active] 608538002343 metal binding site [ion binding]; metal-binding site 608538002344 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 608538002345 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 608538002346 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 608538002347 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 608538002348 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 608538002349 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 608538002350 iron-sulfur cluster [ion binding]; other site 608538002351 [2Fe-2S] cluster binding site [ion binding]; other site 608538002352 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 608538002353 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 608538002354 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 608538002355 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 608538002356 thiamine phosphate binding site [chemical binding]; other site 608538002357 active site 608538002358 pyrophosphate binding site [ion binding]; other site 608538002359 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 608538002360 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 608538002361 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 608538002362 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 608538002363 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 608538002364 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 608538002365 putative NTPase; Provisional; Region: PRK13695 608538002366 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 608538002367 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 608538002368 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 608538002369 ATP-grasp domain; Region: ATP-grasp_4; cl17255 608538002370 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 608538002371 IMP binding site; other site 608538002372 dimer interface [polypeptide binding]; other site 608538002373 interdomain contacts; other site 608538002374 partial ornithine binding site; other site 608538002375 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 608538002376 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 608538002377 active site 608538002378 phosphorylation site [posttranslational modification] 608538002379 intermolecular recognition site; other site 608538002380 dimerization interface [polypeptide binding]; other site 608538002381 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 608538002382 Walker A motif; other site 608538002383 ATP binding site [chemical binding]; other site 608538002384 Walker B motif; other site 608538002385 arginine finger; other site 608538002386 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 608538002387 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 608538002388 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 608538002389 homodimer interface [polypeptide binding]; other site 608538002390 metal binding site [ion binding]; metal-binding site 608538002391 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 608538002392 homodimer interface [polypeptide binding]; other site 608538002393 active site 608538002394 putative chemical substrate binding site [chemical binding]; other site 608538002395 metal binding site [ion binding]; metal-binding site 608538002396 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 608538002397 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 608538002398 ATP binding site [chemical binding]; other site 608538002399 substrate interface [chemical binding]; other site 608538002400 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 608538002401 heterotetramer interface [polypeptide binding]; other site 608538002402 active site pocket [active] 608538002403 cleavage site 608538002404 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 608538002405 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 608538002406 dimerization interface [polypeptide binding]; other site 608538002407 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 608538002408 putative active site [active] 608538002409 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 608538002410 dimer interface [polypeptide binding]; other site 608538002411 phosphorylation site [posttranslational modification] 608538002412 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 608538002413 ATP binding site [chemical binding]; other site 608538002414 Mg2+ binding site [ion binding]; other site 608538002415 G-X-G motif; other site 608538002416 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 608538002417 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 608538002418 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 608538002419 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 608538002420 DNA gyrase subunit A; Validated; Region: PRK05560 608538002421 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 608538002422 CAP-like domain; other site 608538002423 active site 608538002424 primary dimer interface [polypeptide binding]; other site 608538002425 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 608538002426 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 608538002427 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 608538002428 Competence protein; Region: Competence; pfam03772 608538002429 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 608538002430 DEAD/DEAH box helicase; Region: DEAD; pfam00270 608538002431 ATP binding site [chemical binding]; other site 608538002432 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 608538002433 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 608538002434 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 608538002435 Walker A/P-loop; other site 608538002436 ATP binding site [chemical binding]; other site 608538002437 Q-loop/lid; other site 608538002438 ABC transporter signature motif; other site 608538002439 Walker B; other site 608538002440 D-loop; other site 608538002441 H-loop/switch region; other site 608538002442 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 608538002443 putative carbohydrate binding site [chemical binding]; other site 608538002444 isocitrate dehydrogenase; Validated; Region: PRK06451 608538002445 Isocitrate dehydrogenases [Energy production and conversion]; Region: Icd; COG0538 608538002446 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 608538002447 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 608538002448 S-adenosylmethionine binding site [chemical binding]; other site 608538002449 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 608538002450 AP endonuclease family 2; Region: AP2Ec; smart00518 608538002451 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 608538002452 AP (apurinic/apyrimidinic) site pocket; other site 608538002453 DNA interaction; other site 608538002454 Metal-binding active site; metal-binding site 608538002455 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 608538002456 DHH family; Region: DHH; pfam01368 608538002457 DHHA1 domain; Region: DHHA1; pfam02272 608538002458 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 608538002459 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 608538002460 HIGH motif; other site 608538002461 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 608538002462 active site 608538002463 KMSKS motif; other site 608538002464 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 608538002465 tRNA binding surface [nucleotide binding]; other site 608538002466 anticodon binding site; other site 608538002467 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 608538002468 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 608538002469 50S ribosomal protein L29; Reviewed; Region: PRK00306 608538002470 putative translocon interaction site; other site 608538002471 23S rRNA interface [nucleotide binding]; other site 608538002472 signal recognition particle (SRP54) interaction site; other site 608538002473 L23 interface [polypeptide binding]; other site 608538002474 trigger factor interaction site; other site 608538002475 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 608538002476 23S rRNA interface [nucleotide binding]; other site 608538002477 5S rRNA interface [nucleotide binding]; other site 608538002478 putative antibiotic binding site [chemical binding]; other site 608538002479 L25 interface [polypeptide binding]; other site 608538002480 L27 interface [polypeptide binding]; other site 608538002481 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 608538002482 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 608538002483 G-X-X-G motif; other site 608538002484 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 608538002485 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 608538002486 putative translocon binding site; other site 608538002487 protein-rRNA interface [nucleotide binding]; other site 608538002488 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 608538002489 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 608538002490 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 608538002491 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 608538002492 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 608538002493 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 608538002494 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 608538002495 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 608538002496 elongation factor Tu; Reviewed; Region: PRK00049 608538002497 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 608538002498 G1 box; other site 608538002499 GEF interaction site [polypeptide binding]; other site 608538002500 GTP/Mg2+ binding site [chemical binding]; other site 608538002501 Switch I region; other site 608538002502 G2 box; other site 608538002503 G3 box; other site 608538002504 Switch II region; other site 608538002505 G4 box; other site 608538002506 G5 box; other site 608538002507 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 608538002508 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 608538002509 Antibiotic Binding Site [chemical binding]; other site 608538002510 elongation factor G; Reviewed; Region: PRK00007 608538002511 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 608538002512 G1 box; other site 608538002513 putative GEF interaction site [polypeptide binding]; other site 608538002514 GTP/Mg2+ binding site [chemical binding]; other site 608538002515 Switch I region; other site 608538002516 G2 box; other site 608538002517 G3 box; other site 608538002518 Switch II region; other site 608538002519 G4 box; other site 608538002520 G5 box; other site 608538002521 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 608538002522 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 608538002523 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 608538002524 30S ribosomal protein S7; Validated; Region: PRK05302 608538002525 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 608538002526 S17 interaction site [polypeptide binding]; other site 608538002527 S8 interaction site; other site 608538002528 16S rRNA interaction site [nucleotide binding]; other site 608538002529 streptomycin interaction site [chemical binding]; other site 608538002530 23S rRNA interaction site [nucleotide binding]; other site 608538002531 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 608538002532 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 608538002533 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 608538002534 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 608538002535 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 608538002536 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 608538002537 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 608538002538 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 608538002539 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 608538002540 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 608538002541 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 608538002542 DNA binding site [nucleotide binding] 608538002543 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 608538002544 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 608538002545 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 608538002546 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 608538002547 RPB12 interaction site [polypeptide binding]; other site 608538002548 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 608538002549 RPB11 interaction site [polypeptide binding]; other site 608538002550 RPB12 interaction site [polypeptide binding]; other site 608538002551 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 608538002552 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 608538002553 RPB1 interaction site [polypeptide binding]; other site 608538002554 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 608538002555 core dimer interface [polypeptide binding]; other site 608538002556 peripheral dimer interface [polypeptide binding]; other site 608538002557 L10 interface [polypeptide binding]; other site 608538002558 L11 interface [polypeptide binding]; other site 608538002559 putative EF-Tu interaction site [polypeptide binding]; other site 608538002560 putative EF-G interaction site [polypeptide binding]; other site 608538002561 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 608538002562 23S rRNA interface [nucleotide binding]; other site 608538002563 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 608538002564 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 608538002565 mRNA/rRNA interface [nucleotide binding]; other site 608538002566 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 608538002567 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 608538002568 23S rRNA interface [nucleotide binding]; other site 608538002569 L7/L12 interface [polypeptide binding]; other site 608538002570 putative thiostrepton binding site; other site 608538002571 L25 interface [polypeptide binding]; other site 608538002572 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 608538002573 NGN-insert domain found between N-terminal domain (D1) and C-terminal KOW domain (DIII) repeats of some N-Utilization Substance G (NusG) N-terminal (NGN); Region: NGN-insert_like; cd09910 608538002574 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 608538002575 putative homodimer interface [polypeptide binding]; other site 608538002576 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 608538002577 heterodimer interface [polypeptide binding]; other site 608538002578 homodimer interface [polypeptide binding]; other site 608538002579 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 608538002580 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 608538002581 elongation factor Tu; Reviewed; Region: PRK00049 608538002582 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 608538002583 G1 box; other site 608538002584 GEF interaction site [polypeptide binding]; other site 608538002585 GTP/Mg2+ binding site [chemical binding]; other site 608538002586 Switch I region; other site 608538002587 G2 box; other site 608538002588 G3 box; other site 608538002589 Switch II region; other site 608538002590 G4 box; other site 608538002591 G5 box; other site 608538002592 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 608538002593 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 608538002594 Antibiotic Binding Site [chemical binding]; other site 608538002595 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 608538002596 pseudo gene. This gene has no initial codon.; putative permease of the major facilitator superfamily 608538002597 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 608538002598 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 608538002599 active site 608538002600 dimer interface [polypeptide binding]; other site 608538002601 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 608538002602 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 608538002603 active site 608538002604 FMN binding site [chemical binding]; other site 608538002605 substrate binding site [chemical binding]; other site 608538002606 3Fe-4S cluster binding site [ion binding]; other site 608538002607 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 608538002608 domain interface; other site 608538002609 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 608538002610 active site 608538002611 dimer interface [polypeptide binding]; other site 608538002612 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 608538002613 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 608538002614 putative active site [active] 608538002615 oxyanion strand; other site 608538002616 catalytic triad [active] 608538002617 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 608538002618 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 608538002619 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 608538002620 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 608538002621 catalytic residues [active] 608538002622 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 608538002623 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 608538002624 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 608538002625 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 608538002626 DNA binding residues [nucleotide binding] 608538002627 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 608538002628 catalytic residues [active] 608538002629 catalytic nucleophile [active] 608538002630 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 608538002631 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 608538002632 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 608538002633 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 608538002634 Terminase-like family; Region: Terminase_6; pfam03237 608538002635 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 608538002636 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 608538002637 cell surface protein SprA; Region: surface_SprA; TIGR04189 608538002638 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 608538002639 non-specific DNA binding site [nucleotide binding]; other site 608538002640 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 608538002641 salt bridge; other site 608538002642 sequence-specific DNA binding site [nucleotide binding]; other site 608538002643 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 608538002644 Catalytic site [active] 608538002645 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 608538002646 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 608538002647 non-specific DNA binding site [nucleotide binding]; other site 608538002648 salt bridge; other site 608538002649 sequence-specific DNA binding site [nucleotide binding]; other site 608538002650 ParB-like nuclease domain; Region: ParB; smart00470 608538002651 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 608538002652 sequence-specific DNA binding site [nucleotide binding]; other site 608538002653 salt bridge; other site 608538002654 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 608538002655 Homeodomain-like domain; Region: HTH_23; pfam13384 608538002656 Integrase core domain; Region: rve; pfam00665 608538002657 AAA domain; Region: AAA_22; pfam13401 608538002658 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 608538002659 Helix-turn-helix domain; Region: HTH_17; pfam12728 608538002660 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 608538002661 hypothetical protein; Region: PHA01756 608538002662 GAF domain; Region: GAF_2; pfam13185 608538002663 GAF domain; Region: GAF; pfam01590 608538002664 PAS domain; Region: PAS_9; pfam13426 608538002665 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 608538002666 putative active site [active] 608538002667 heme pocket [chemical binding]; other site 608538002668 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 608538002669 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 608538002670 metal binding site [ion binding]; metal-binding site 608538002671 active site 608538002672 I-site; other site 608538002673 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 608538002674 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 608538002675 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 608538002676 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 608538002677 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 608538002678 molybdopterin cofactor binding site; other site 608538002679 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 608538002680 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 608538002681 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 608538002682 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 608538002683 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 608538002684 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 608538002685 E-class dimer interface [polypeptide binding]; other site 608538002686 P-class dimer interface [polypeptide binding]; other site 608538002687 active site 608538002688 Cu2+ binding site [ion binding]; other site 608538002689 Zn2+ binding site [ion binding]; other site 608538002690 Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]; Region: FdhE; COG3058 608538002691 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 608538002692 glycine cleavage system protein H; Provisional; Region: PRK13380 608538002693 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 608538002694 lipoyl attachment site [posttranslational modification]; other site 608538002695 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 608538002696 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 608538002697 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 608538002698 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 608538002699 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 608538002700 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 608538002701 FtsX-like permease family; Region: FtsX; pfam02687 608538002702 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 608538002703 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 608538002704 Walker A/P-loop; other site 608538002705 ATP binding site [chemical binding]; other site 608538002706 Q-loop/lid; other site 608538002707 ABC transporter signature motif; other site 608538002708 Walker B; other site 608538002709 D-loop; other site 608538002710 H-loop/switch region; other site 608538002711 macrolide transporter subunit MacA; Provisional; Region: PRK11578 608538002712 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 608538002713 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 608538002714 HlyD family secretion protein; Region: HlyD_3; pfam13437 608538002715 putative membrane fusion protein; Region: TIGR02828 608538002716 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; cd01610 608538002717 active site 608538002718 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 608538002719 active site 608538002720 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 608538002721 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 608538002722 FeS/SAM binding site; other site 608538002723 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 608538002724 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 608538002725 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 608538002726 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 608538002727 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 608538002728 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 608538002729 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 608538002730 Subunit I/III interface [polypeptide binding]; other site 608538002731 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 608538002732 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 608538002733 ligand binding site [chemical binding]; other site 608538002734 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 608538002735 putative active site [active] 608538002736 dimerization interface [polypeptide binding]; other site 608538002737 putative tRNAtyr binding site [nucleotide binding]; other site 608538002738 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 608538002739 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 608538002740 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 608538002741 cysteine synthase B; Region: cysM; TIGR01138 608538002742 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 608538002743 dimer interface [polypeptide binding]; other site 608538002744 pyridoxal 5'-phosphate binding site [chemical binding]; other site 608538002745 catalytic residue [active] 608538002746 glutamate synthase (NADPH), homotetrameric; Region: gltA; TIGR01316 608538002747 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 608538002748 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 608538002749 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 608538002750 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 608538002751 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 608538002752 putative active site [active] 608538002753 MraW methylase family; Region: Methyltransf_5; pfam01795 608538002754 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 608538002755 ATP synthase; Region: ATP-synt; pfam00231 608538002756 core domain interface [polypeptide binding]; other site 608538002757 delta subunit interface [polypeptide binding]; other site 608538002758 epsilon subunit interface [polypeptide binding]; other site 608538002759 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 608538002760 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 608538002761 active site 608538002762 HIGH motif; other site 608538002763 dimer interface [polypeptide binding]; other site 608538002764 KMSKS motif; other site 608538002765 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 608538002766 trimer interface [polypeptide binding]; other site 608538002767 active site 608538002768 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 608538002769 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 608538002770 FtsX-like permease family; Region: FtsX; pfam02687 608538002771 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 608538002772 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 608538002773 Walker A/P-loop; other site 608538002774 ATP binding site [chemical binding]; other site 608538002775 Q-loop/lid; other site 608538002776 ABC transporter signature motif; other site 608538002777 Walker B; other site 608538002778 D-loop; other site 608538002779 H-loop/switch region; other site 608538002780 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 608538002781 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 608538002782 Ligand binding site; other site 608538002783 Putative Catalytic site; other site 608538002784 DXD motif; other site 608538002785 Protein of unknown function (DUF523); Region: DUF523; pfam04463 608538002786 Uncharacterized conserved protein [Function unknown]; Region: COG3272 608538002787 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 608538002788 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 608538002789 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 608538002790 CoA-binding site [chemical binding]; other site 608538002791 ATP-binding [chemical binding]; other site 608538002792 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 608538002793 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 608538002794 Cysteine-rich domain; Region: CCG; pfam02754 608538002795 Cysteine-rich domain; Region: CCG; pfam02754 608538002796 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 608538002797 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 608538002798 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 608538002799 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 608538002800 PAS domain; Region: PAS_9; pfam13426 608538002801 putative active site [active] 608538002802 heme pocket [chemical binding]; other site 608538002803 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 608538002804 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 608538002805 dimer interface [polypeptide binding]; other site 608538002806 phosphorylation site [posttranslational modification] 608538002807 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 608538002808 ATP binding site [chemical binding]; other site 608538002809 Mg2+ binding site [ion binding]; other site 608538002810 G-X-G motif; other site 608538002811 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 608538002812 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 608538002813 active site 608538002814 phosphorylation site [posttranslational modification] 608538002815 intermolecular recognition site; other site 608538002816 dimerization interface [polypeptide binding]; other site 608538002817 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 608538002818 Walker A motif; other site 608538002819 ATP binding site [chemical binding]; other site 608538002820 Walker B motif; other site 608538002821 arginine finger; other site 608538002822 GTPase Era; Reviewed; Region: era; PRK00089 608538002823 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 608538002824 G1 box; other site 608538002825 GTP/Mg2+ binding site [chemical binding]; other site 608538002826 Switch I region; other site 608538002827 G2 box; other site 608538002828 Switch II region; other site 608538002829 G3 box; other site 608538002830 G4 box; other site 608538002831 G5 box; other site 608538002832 KH domain; Region: KH_2; pfam07650 608538002833 pseudo gene. This gene has no initial codon.; type II restriction/modification system 608538002834 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 608538002835 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 608538002836 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 608538002837 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 608538002838 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 608538002839 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 608538002840 MPT binding site; other site 608538002841 trimer interface [polypeptide binding]; other site 608538002842 enolase; Provisional; Region: eno; PRK00077 608538002843 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 608538002844 dimer interface [polypeptide binding]; other site 608538002845 metal binding site [ion binding]; metal-binding site 608538002846 substrate binding pocket [chemical binding]; other site 608538002847 Septum formation initiator; Region: DivIC; cl17659 608538002848 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 608538002849 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 608538002850 catalytic motif [active] 608538002851 Zn binding site [ion binding]; other site 608538002852 RibD C-terminal domain; Region: RibD_C; cl17279 608538002853 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 608538002854 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 608538002855 putative active site [active] 608538002856 substrate binding site [chemical binding]; other site 608538002857 putative cosubstrate binding site; other site 608538002858 catalytic site [active] 608538002859 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 608538002860 substrate binding site [chemical binding]; other site 608538002861 Uncharacterized conserved protein [Function unknown]; Region: COG2445 608538002862 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 608538002863 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 608538002864 catalytic loop [active] 608538002865 iron binding site [ion binding]; other site 608538002866 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 608538002867 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 608538002868 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 608538002869 RimM N-terminal domain; Region: RimM; pfam01782 608538002870 PRC-barrel domain; Region: PRC; pfam05239 608538002871 Cytochrome c; Region: Cytochrom_C; cl11414 608538002872 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 608538002873 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 608538002874 Peptidase family M48; Region: Peptidase_M48; pfam01435 608538002875 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 608538002876 TPR repeat; Region: TPR_11; pfam13414 608538002877 TPR motif; other site 608538002878 binding surface 608538002879 Tetratricopeptide repeat; Region: TPR_12; pfam13424 608538002880 Protein phosphatase 2C; Region: PP2C; pfam00481 608538002881 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 608538002882 active site 608538002883 KaiC domain protein, AF_0795 family; Region: thermo_KaiC_2; TIGR03878 608538002884 KaiC; Region: KaiC; pfam06745 608538002885 Walker A motif; other site 608538002886 ATP binding site [chemical binding]; other site 608538002887 Walker B motif; other site 608538002888 NlpC/P60 family; Region: NLPC_P60; pfam00877 608538002889 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 608538002890 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 608538002891 active site residue [active] 608538002892 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 608538002893 active site 608538002894 DsrE/DsrF-like family; Region: DrsE; pfam02635 608538002895 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 608538002896 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 608538002897 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 608538002898 N-acetyl-D-glucosamine binding site [chemical binding]; other site 608538002899 catalytic residue [active] 608538002900 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 608538002901 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 608538002902 inhibitor-cofactor binding pocket; inhibition site 608538002903 pyridoxal 5'-phosphate binding site [chemical binding]; other site 608538002904 catalytic residue [active] 608538002905 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 608538002906 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 608538002907 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 608538002908 hydrogenase accessory protein HypB; Region: hypB; TIGR00073 608538002909 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 608538002910 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 608538002911 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 608538002912 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 608538002913 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 608538002914 dimerization interface [polypeptide binding]; other site 608538002915 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 608538002916 ATP binding site [chemical binding]; other site 608538002917 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 608538002918 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 608538002919 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 608538002920 Acylphosphatase; Region: Acylphosphatase; pfam00708 608538002921 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 608538002922 HypF finger; Region: zf-HYPF; pfam07503 608538002923 HypF finger; Region: zf-HYPF; pfam07503 608538002924 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 608538002925 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 608538002926 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 608538002927 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 608538002928 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 608538002929 putative substrate-binding site; other site 608538002930 nickel binding site [ion binding]; other site 608538002931 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 608538002932 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 608538002933 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 608538002934 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 608538002935 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 608538002936 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 608538002937 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 608538002938 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 608538002939 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 608538002940 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 608538002941 IHF dimer interface [polypeptide binding]; other site 608538002942 IHF - DNA interface [nucleotide binding]; other site 608538002943 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 608538002944 ribosomal protein S1; Region: rpsA; TIGR00717 608538002945 RNA binding site [nucleotide binding]; other site 608538002946 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 608538002947 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 608538002948 S1 RNA binding domain; Region: S1; pfam00575 608538002949 RNA binding site [nucleotide binding]; other site 608538002950 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 608538002951 RNA binding site [nucleotide binding]; other site 608538002952 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 608538002953 RNA binding site [nucleotide binding]; other site 608538002954 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 608538002955 hypothetical protein; Reviewed; Region: PRK09588 608538002956 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 608538002957 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 608538002958 FtsX-like permease family; Region: FtsX; pfam02687 608538002959 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 608538002960 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 608538002961 Walker A/P-loop; other site 608538002962 ATP binding site [chemical binding]; other site 608538002963 Q-loop/lid; other site 608538002964 ABC transporter signature motif; other site 608538002965 Walker B; other site 608538002966 D-loop; other site 608538002967 H-loop/switch region; other site 608538002968 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 608538002969 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 608538002970 FtsX-like permease family; Region: FtsX; pfam02687 608538002971 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 608538002972 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 608538002973 Walker A/P-loop; other site 608538002974 ATP binding site [chemical binding]; other site 608538002975 Q-loop/lid; other site 608538002976 ABC transporter signature motif; other site 608538002977 Walker B; other site 608538002978 D-loop; other site 608538002979 H-loop/switch region; other site 608538002980 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 608538002981 YtkA-like; Region: YtkA; pfam13115 608538002982 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 608538002983 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 608538002984 ATP binding site [chemical binding]; other site 608538002985 Mg2+ binding site [ion binding]; other site 608538002986 G-X-G motif; other site 608538002987 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 608538002988 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 608538002989 active site 608538002990 phosphorylation site [posttranslational modification] 608538002991 intermolecular recognition site; other site 608538002992 dimerization interface [polypeptide binding]; other site 608538002993 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 608538002994 Walker A motif; other site 608538002995 ATP binding site [chemical binding]; other site 608538002996 Walker B motif; other site 608538002997 arginine finger; other site 608538002998 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 608538002999 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 608538003000 active site 608538003001 catalytic residues [active] 608538003002 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 608538003003 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 608538003004 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 608538003005 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 608538003006 pyridoxal 5'-phosphate binding site [chemical binding]; other site 608538003007 catalytic residue [active] 608538003008 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 608538003009 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 608538003010 active site 608538003011 DsrH like protein; Region: DsrH; cl17347 608538003012 DsrE/DsrF-like family; Region: DrsE; cl00672 608538003013 DsrE/DsrF-like family; Region: DrsE; pfam02635 608538003014 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 608538003015 CPxP motif; other site 608538003016 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 608538003017 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 608538003018 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 608538003019 Walker A motif; other site 608538003020 ATP binding site [chemical binding]; other site 608538003021 Walker B motif; other site 608538003022 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 608538003023 oligomerization interface [polypeptide binding]; other site 608538003024 active site 608538003025 metal binding site [ion binding]; metal-binding site 608538003026 tRNA synthetases class I (I, L, M and V); Region: tRNA-synt_1; pfam00133 608538003027 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 608538003028 HIGH motif; other site 608538003029 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 608538003030 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 608538003031 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 608538003032 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 608538003033 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 608538003034 nucleotide binding site [chemical binding]; other site 608538003035 NEF interaction site [polypeptide binding]; other site 608538003036 SBD interface [polypeptide binding]; other site 608538003037 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 608538003038 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 608538003039 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 608538003040 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 608538003041 putative ADP-binding pocket [chemical binding]; other site 608538003042 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 608538003043 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 608538003044 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 608538003045 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 608538003046 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 608538003047 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 608538003048 active site 608538003049 HIGH motif; other site 608538003050 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 608538003051 KMSKS motif; other site 608538003052 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 608538003053 tRNA binding surface [nucleotide binding]; other site 608538003054 anticodon binding site; other site 608538003055 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 608538003056 HIGH motif; other site 608538003057 dimer interface [polypeptide binding]; other site 608538003058 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 608538003059 active site 608538003060 KMSKS motif; other site 608538003061 PHP domain; Region: PHP; pfam02811 608538003062 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 608538003063 active site 608538003064 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 608538003065 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 608538003066 metal binding site [ion binding]; metal-binding site 608538003067 active site 608538003068 I-site; other site 608538003069 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 608538003070 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 608538003071 metal binding site [ion binding]; metal-binding site 608538003072 active site 608538003073 I-site; other site 608538003074 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 608538003075 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 608538003076 dimer interface [polypeptide binding]; other site 608538003077 FMN binding site [chemical binding]; other site 608538003078 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 608538003079 CoenzymeA binding site [chemical binding]; other site 608538003080 subunit interaction site [polypeptide binding]; other site 608538003081 PHB binding site; other site 608538003082 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 608538003083 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 608538003084 active site 608538003085 catalytic tetrad [active] 608538003086 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 608538003087 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 608538003088 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 608538003089 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 608538003090 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 608538003091 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 608538003092 catalytic loop [active] 608538003093 iron binding site [ion binding]; other site 608538003094 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 608538003095 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 608538003096 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 608538003097 active site 608538003098 FMN binding site [chemical binding]; other site 608538003099 substrate binding site [chemical binding]; other site 608538003100 homotetramer interface [polypeptide binding]; other site 608538003101 catalytic residue [active] 608538003102 Predicted transcriptional regulators [Transcription]; Region: COG1733 608538003103 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 608538003104 dimerization interface [polypeptide binding]; other site 608538003105 putative DNA binding site [nucleotide binding]; other site 608538003106 putative Zn2+ binding site [ion binding]; other site 608538003107 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 608538003108 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 608538003109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 608538003110 catalytic residue [active] 608538003111 septum site-determining protein MinC; Region: minC; TIGR01222 608538003112 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 608538003113 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 608538003114 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 608538003115 P-loop; other site 608538003116 ADP binding residues [chemical binding]; other site 608538003117 Switch I; other site 608538003118 Switch II; other site 608538003119 Septum formation topological specificity factor MinE; Region: MinE; cl00538 608538003120 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 608538003121 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 608538003122 motif II; other site 608538003123 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 608538003124 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 608538003125 putative active site [active] 608538003126 putative metal binding site [ion binding]; other site 608538003127 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 608538003128 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 608538003129 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 608538003130 SurA N-terminal domain; Region: SurA_N; pfam09312 608538003131 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 608538003132 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 608538003133 FAD binding domain; Region: FAD_binding_4; pfam01565 608538003134 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 608538003135 Protein of unknown function (DUF507); Region: DUF507; cl01112 608538003136 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 608538003137 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 608538003138 S-adenosylmethionine binding site [chemical binding]; other site 608538003139 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 608538003140 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 608538003141 gamma subunit interface [polypeptide binding]; other site 608538003142 epsilon subunit interface [polypeptide binding]; other site 608538003143 LBP interface [polypeptide binding]; other site 608538003144 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 608538003145 intersubunit interface [polypeptide binding]; other site 608538003146 active site 608538003147 Zn2+ binding site [ion binding]; other site 608538003148 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 608538003149 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 608538003150 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 608538003151 substrate binding site [chemical binding]; other site 608538003152 THF binding site; other site 608538003153 zinc-binding site [ion binding]; other site 608538003154 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 608538003155 dimer interface [polypeptide binding]; other site 608538003156 phosphorylation site [posttranslational modification] 608538003157 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 608538003158 ATP binding site [chemical binding]; other site 608538003159 Mg2+ binding site [ion binding]; other site 608538003160 G-X-G motif; other site 608538003161 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 608538003162 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 608538003163 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 608538003164 dimerization interface [polypeptide binding]; other site 608538003165 active site 608538003166 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 608538003167 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 608538003168 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 608538003169 Walker A/P-loop; other site 608538003170 ATP binding site [chemical binding]; other site 608538003171 Q-loop/lid; other site 608538003172 ABC transporter signature motif; other site 608538003173 Walker B; other site 608538003174 D-loop; other site 608538003175 H-loop/switch region; other site 608538003176 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 608538003177 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 608538003178 GTP cyclohydrolase I; Provisional; Region: PLN03044 608538003179 active site 608538003180 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 608538003181 active site 608538003182 KMSKS motif; other site 608538003183 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 608538003184 tRNA binding surface [nucleotide binding]; other site 608538003185 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 608538003186 Domain of unknown function DUF29; Region: DUF29; pfam01724 608538003187 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 608538003188 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 608538003189 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 608538003190 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 608538003191 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 608538003192 TPP-binding site [chemical binding]; other site 608538003193 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 608538003194 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 608538003195 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 608538003196 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 608538003197 dimer interface [polypeptide binding]; other site 608538003198 PYR/PP interface [polypeptide binding]; other site 608538003199 TPP binding site [chemical binding]; other site 608538003200 substrate binding site [chemical binding]; other site 608538003201 CO dehydrogenase beta subunit/acetyl-CoA synthase epsilon subunit; Region: CO_dh; pfam02552 608538003202 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 608538003203 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 608538003204 dimer interface [polypeptide binding]; other site 608538003205 PYR/PP interface [polypeptide binding]; other site 608538003206 TPP binding site [chemical binding]; other site 608538003207 substrate binding site [chemical binding]; other site 608538003208 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 608538003209 Thiamine pyrophosphate (TPP family), Pyruvate ferredoxin/flavodoxin oxidoreductase (PFOR) subfamily, TPP-binding module; PFOR catalyzes the oxidative decarboxylation of pyruvate to form acetyl-CoA, a crucial step in many metabolic pathways. Archaea; Region: TPP_PFOR; cd02018 608538003210 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 608538003211 TPP-binding site [chemical binding]; other site 608538003212 dimer interface [polypeptide binding]; other site 608538003213 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 608538003214 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, delta subunit [Energy production and conversion]; Region: COG1144 608538003215 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 608538003216 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 608538003217 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 608538003218 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 608538003219 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 608538003220 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 608538003221 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 608538003222 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 608538003223 Nitrogen regulatory protein P-II; Region: P-II; smart00938 608538003224 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 608538003225 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 608538003226 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 608538003227 active site 608538003228 catalytic tetrad [active] 608538003229 succinate dehydrogenase and fumarate reductase iron-sulfur protein; Region: dhsB; TIGR00384 608538003230 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 608538003231 catalytic loop [active] 608538003232 iron binding site [ion binding]; other site 608538003233 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 608538003234 Ligand Binding Site [chemical binding]; other site 608538003235 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 608538003236 active site 608538003237 SAM binding site [chemical binding]; other site 608538003238 homodimer interface [polypeptide binding]; other site 608538003239 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 608538003240 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 608538003241 active site 608538003242 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 608538003243 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 608538003244 [4Fe-4S] binding site [ion binding]; other site 608538003245 molybdopterin cofactor binding site; other site 608538003246 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 608538003247 molybdopterin cofactor binding site; other site 608538003248 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 608538003249 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 608538003250 putative substrate translocation pore; other site 608538003251 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 608538003252 cyanate hydratase; Validated; Region: PRK02866 608538003253 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 608538003254 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 608538003255 oligomer interface [polypeptide binding]; other site 608538003256 active site 608538003257 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 608538003258 Nitrogen regulatory protein P-II; Region: P-II; smart00938 608538003259 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 608538003260 Nitrogen regulatory protein P-II; Region: P-II; smart00938 608538003261 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 608538003262 heme-binding site [chemical binding]; other site 608538003263 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 608538003264 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 608538003265 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 608538003266 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 608538003267 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 608538003268 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 608538003269 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 608538003270 metal-binding site [ion binding] 608538003271 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 608538003272 Nitrogen regulatory protein P-II; Region: P-II; smart00938 608538003273 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 608538003274 Nitrogen regulatory protein P-II; Region: P-II; smart00938 608538003275 NifT/FixU protein; Region: NifT; pfam06988 608538003276 nitrogenase cofactor biosynthesis protein; pseudo gene. This gene contains a frameshift mutation. 608538003277 4Fe-4S binding domain; Region: Fer4; cl02805 608538003278 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 608538003279 Nitrogen fixation protein NifW; Region: NifW; pfam03206 608538003280 NifZ domain; Region: NifZ; pfam04319 608538003281 TOBE domain; Region: TOBE; cl01440 608538003282 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 608538003283 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 608538003284 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 608538003285 Rop-like; Region: Rop-like; cl02247 608538003286 homocitrate synthase; Region: LysS_fung_arch; TIGR02146 608538003287 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 608538003288 active site 608538003289 catalytic residues [active] 608538003290 metal binding site [ion binding]; metal-binding site 608538003291 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 608538003292 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 608538003293 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 608538003294 catalytic residue [active] 608538003295 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 608538003296 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 608538003297 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 608538003298 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 608538003299 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 608538003300 GAF domain; Region: GAF; pfam01590 608538003301 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 608538003302 Walker A motif; other site 608538003303 ATP binding site [chemical binding]; other site 608538003304 Walker B motif; other site 608538003305 arginine finger; other site 608538003306 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 608538003307 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 608538003308 nitrogenase iron protein; Region: nifH; TIGR01287 608538003309 Nucleotide-binding sites [chemical binding]; other site 608538003310 Walker A motif; other site 608538003311 Switch I region of nucleotide binding site; other site 608538003312 Fe4S4 binding sites [ion binding]; other site 608538003313 Switch II region of nucleotide binding site; other site 608538003314 nitrogenase molybdenum-iron protein alpha chain; pseudo gene. This gene contains a frameshift mutation. 608538003315 nitrogenase molybdenum-iron protein beta chain; pseudo gene. This gene contains a frameshift mutation. 608538003316 pseudo gene. This gene contains a frameshift mutation.; transcriptional regulator, Crp/Fnr family 608538003317 Protein of unknown function, DUF269; Region: DUF269; cl03973 608538003318 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 608538003319 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 608538003320 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 608538003321 catalytic residue [active] 608538003322 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 608538003323 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 608538003324 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 608538003325 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 608538003326 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, 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. The protein...; Region: NifX; cd00853 608538003327 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 608538003328 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 608538003329 hydrogenase 4 subunit F; Validated; Region: PRK06458 608538003330 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 608538003331 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 608538003332 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 608538003333 hydrogenase 4 subunit B; Validated; Region: PRK06521 608538003334 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 608538003335 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 608538003336 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 608538003337 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 608538003338 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 608538003339 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 608538003340 catalytic center binding site [active] 608538003341 ATP binding site [chemical binding]; other site 608538003342 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 608538003343 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 608538003344 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 608538003345 catalytic residue [active] 608538003346 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 608538003347 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 608538003348 Walker A motif; other site 608538003349 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 608538003350 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 608538003351 Walker A motif; other site 608538003352 ATP binding site [chemical binding]; other site 608538003353 Walker B motif; other site 608538003354 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 608538003355 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 608538003356 dimer interface [polypeptide binding]; other site 608538003357 active site 608538003358 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 608538003359 catalytic residues [active] 608538003360 substrate binding site [chemical binding]; other site 608538003361 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 608538003362 Ligand Binding Site [chemical binding]; other site 608538003363 Protein of unknown function (DUF458); Region: DUF458; cl00861 608538003364 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 608538003365 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 608538003366 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 608538003367 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 608538003368 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 608538003369 dimerization interface [polypeptide binding]; other site 608538003370 putative ATP binding site [chemical binding]; other site 608538003371 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 608538003372 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 608538003373 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 608538003374 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 608538003375 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 608538003376 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 608538003377 Surface antigen; Region: Bac_surface_Ag; pfam01103 608538003378 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 608538003379 dimer interface [polypeptide binding]; other site 608538003380 substrate binding site [chemical binding]; other site 608538003381 ATP binding site [chemical binding]; other site 608538003382 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 608538003383 trimer interface [polypeptide binding]; other site 608538003384 dimer interface [polypeptide binding]; other site 608538003385 putative active site [active] 608538003386 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 608538003387 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 608538003388 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 608538003389 DNA protecting protein DprA; Region: dprA; TIGR00732 608538003390 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 608538003391 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 608538003392 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 608538003393 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 608538003394 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 608538003395 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 608538003396 FeS/SAM binding site; other site 608538003397 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 608538003398 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 608538003399 Cupin domain; Region: Cupin_2; pfam07883 608538003400 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 608538003401 trimer interface [polypeptide binding]; other site 608538003402 active site 608538003403 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 608538003404 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 608538003405 RNase E interface [polypeptide binding]; other site 608538003406 trimer interface [polypeptide binding]; other site 608538003407 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 608538003408 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 608538003409 RNase E interface [polypeptide binding]; other site 608538003410 trimer interface [polypeptide binding]; other site 608538003411 active site 608538003412 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 608538003413 putative nucleic acid binding region [nucleotide binding]; other site 608538003414 G-X-X-G motif; other site 608538003415 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 608538003416 RNA binding site [nucleotide binding]; other site 608538003417 domain interface; other site 608538003418 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 608538003419 16S/18S rRNA binding site [nucleotide binding]; other site 608538003420 S13e-L30e interaction site [polypeptide binding]; other site 608538003421 25S rRNA binding site [nucleotide binding]; other site 608538003422 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 608538003423 Low molecular weight phosphatase family; Region: LMWPc; cl00105 608538003424 active site 608538003425 Transcriptional regulator [Transcription]; Region: LysR; COG0583 608538003426 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 608538003427 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 608538003428 putative dimerization interface [polypeptide binding]; other site 608538003429 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 608538003430 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 608538003431 motif II; other site 608538003432 Uncharacterized conserved protein [Function unknown]; Region: COG2835 608538003433 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 608538003434 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 608538003435 FeS/SAM binding site; other site 608538003436 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 608538003437 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 608538003438 MoaE homodimer interface [polypeptide binding]; other site 608538003439 MoaD interaction [polypeptide binding]; other site 608538003440 active site residues [active] 608538003441 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 608538003442 metal ion-dependent adhesion site (MIDAS); other site 608538003443 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 608538003444 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 608538003445 Walker A/P-loop; other site 608538003446 ATP binding site [chemical binding]; other site 608538003447 Q-loop/lid; other site 608538003448 ABC transporter signature motif; other site 608538003449 Walker B; other site 608538003450 D-loop; other site 608538003451 H-loop/switch region; other site 608538003452 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 608538003453 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 608538003454 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 608538003455 S-adenosylmethionine binding site [chemical binding]; other site 608538003456 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 608538003457 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 608538003458 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 608538003459 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 608538003460 Cu(I) binding site [ion binding]; other site 608538003461 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 608538003462 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 608538003463 GatB domain; Region: GatB_Yqey; smart00845 608538003464 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 608538003465 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 608538003466 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 608538003467 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 608538003468 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 608538003469 Predicted alternative 3-dehydroquinate synthase [Amino acid transport and metabolism]; Region: COG1465 608538003470 3-dehydroquinate synthase; Provisional; Region: PRK02290 608538003471 ornithine carbamoyltransferase; Provisional; Region: PRK00779 608538003472 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 608538003473 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 608538003474 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 608538003475 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 608538003476 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 608538003477 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 608538003478 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 608538003479 substrate binding pocket [chemical binding]; other site 608538003480 chain length determination region; other site 608538003481 substrate-Mg2+ binding site; other site 608538003482 catalytic residues [active] 608538003483 aspartate-rich region 1; other site 608538003484 active site lid residues [active] 608538003485 aspartate-rich region 2; other site 608538003486 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14667 608538003487 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 608538003488 GIY-YIG motif/motif A; other site 608538003489 active site 608538003490 catalytic site [active] 608538003491 putative DNA binding site [nucleotide binding]; other site 608538003492 metal binding site [ion binding]; metal-binding site 608538003493 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 608538003494 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 608538003495 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 608538003496 substrate binding pocket [chemical binding]; other site 608538003497 chain length determination region; other site 608538003498 substrate-Mg2+ binding site; other site 608538003499 catalytic residues [active] 608538003500 aspartate-rich region 1; other site 608538003501 active site lid residues [active] 608538003502 aspartate-rich region 2; other site 608538003503 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 608538003504 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 608538003505 N-acetyl-D-glucosamine binding site [chemical binding]; other site 608538003506 catalytic residue [active] 608538003507 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 608538003508 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 608538003509 active site 608538003510 catalytic residues [active] 608538003511 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 608538003512 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 608538003513 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 608538003514 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 608538003515 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 608538003516 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 608538003517 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 608538003518 FeS/SAM binding site; other site 608538003519 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 608538003520 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 608538003521 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 608538003522 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 608538003523 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; cl17904 608538003524 putative substrate translocation pore; other site 608538003525 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 608538003526 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 608538003527 Domain of unknown function DUF302; Region: DUF302; cl01364 608538003528 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 608538003529 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 608538003530 Ferritin-like domain; Region: Ferritin; pfam00210 608538003531 binuclear metal center [ion binding]; other site 608538003532 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 608538003533 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 608538003534 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_3; cd06217 608538003535 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 608538003536 FAD binding pocket [chemical binding]; other site 608538003537 FAD binding motif [chemical binding]; other site 608538003538 phosphate binding motif [ion binding]; other site 608538003539 beta-alpha-beta structure motif; other site 608538003540 NAD binding pocket [chemical binding]; other site 608538003541 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 608538003542 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 608538003543 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 608538003544 Poly A polymerase head domain; Region: PolyA_pol; pfam01743 608538003545 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 608538003546 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 608538003547 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 608538003548 Peptidase family M23; Region: Peptidase_M23; pfam01551 608538003549 Uncharacterized conserved protein [Function unknown]; Region: COG0062 608538003550 putative carbohydrate kinase; Provisional; Region: PRK10565 608538003551 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 608538003552 putative substrate binding site [chemical binding]; other site 608538003553 putative ATP binding site [chemical binding]; other site 608538003554 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 608538003555 dihydrodipicolinate synthase; Region: dapA; TIGR00674 608538003556 dimer interface [polypeptide binding]; other site 608538003557 active site 608538003558 catalytic residue [active] 608538003559 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 608538003560 Endodeoxyribonuclease RusA; Region: RusA; cl01885 608538003561 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 608538003562 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 608538003563 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 608538003564 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 608538003565 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 608538003566 Peptidase family M23; Region: Peptidase_M23; pfam01551 608538003567 Acylphosphatase; Region: Acylphosphatase; pfam00708 608538003568 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 608538003569 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 608538003570 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 608538003571 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 608538003572 FeS/SAM binding site; other site 608538003573 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 608538003574 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 608538003575 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 608538003576 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 608538003577 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 608538003578 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 608538003579 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 608538003580 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 608538003581 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 608538003582 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 608538003583 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 608538003584 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 608538003585 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 608538003586 Family of unknown function (DUF694); Region: DUF694; pfam05107 608538003587 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 608538003588 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 608538003589 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 608538003590 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 608538003591 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 608538003592 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 608538003593 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 608538003594 prolyl-tRNA synthetase; Provisional; Region: PRK09194 608538003595 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 608538003596 dimer interface [polypeptide binding]; other site 608538003597 motif 1; other site 608538003598 active site 608538003599 motif 2; other site 608538003600 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 608538003601 putative deacylase active site [active] 608538003602 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 608538003603 active site 608538003604 motif 3; other site 608538003605 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 608538003606 anticodon binding site; other site 608538003607 AAA domain; Region: AAA_26; pfam13500 608538003608 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 608538003609 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 608538003610 ADP binding site [chemical binding]; other site 608538003611 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 608538003612 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 608538003613 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 608538003614 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 608538003615 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 608538003616 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 608538003617 catalytic site [active] 608538003618 subunit interface [polypeptide binding]; other site 608538003619 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 608538003620 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 608538003621 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 608538003622 active site 608538003623 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 608538003624 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 608538003625 hemolysin-related protein; pseudo gene. This gene contains a frameshift mutation. 608538003626 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 608538003627 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 608538003628 Walker A/P-loop; other site 608538003629 ATP binding site [chemical binding]; other site 608538003630 Q-loop/lid; other site 608538003631 ABC transporter signature motif; other site 608538003632 Walker B; other site 608538003633 D-loop; other site 608538003634 H-loop/switch region; other site 608538003635 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 608538003636 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 608538003637 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 608538003638 FeS/SAM binding site; other site 608538003639 HemN C-terminal domain; Region: HemN_C; pfam06969 608538003640 GrpE; Region: GrpE; pfam01025 608538003641 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 608538003642 dimer interface [polypeptide binding]; other site 608538003643 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 608538003644 Uncharacterized conserved protein [Function unknown]; Region: COG1432 608538003645 LabA_like proteins; Region: LabA; cd10911 608538003646 putative metal binding site [ion binding]; other site 608538003647 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 608538003648 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 608538003649 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 608538003650 hypothetical protein; Provisional; Region: PRK08609 608538003651 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 608538003652 active site 608538003653 primer binding site [nucleotide binding]; other site 608538003654 NTP binding site [chemical binding]; other site 608538003655 metal binding triad [ion binding]; metal-binding site 608538003656 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 608538003657 active site 608538003658 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 608538003659 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 608538003660 domain interfaces; other site 608538003661 active site 608538003662 HerA helicase [Replication, recombination, and repair]; Region: COG0433 608538003663 AMIN domain; Region: AMIN; pfam11741 608538003664 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 608538003665 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 608538003666 active site 608538003667 metal binding site [ion binding]; metal-binding site 608538003668 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 608538003669 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 608538003670 FeS/SAM binding site; other site 608538003671 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 608538003672 translation initiation factor IF-2; Region: IF-2; TIGR00487 608538003673 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 608538003674 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 608538003675 G1 box; other site 608538003676 putative GEF interaction site [polypeptide binding]; other site 608538003677 GTP/Mg2+ binding site [chemical binding]; other site 608538003678 Switch I region; other site 608538003679 G2 box; other site 608538003680 G3 box; other site 608538003681 Switch II region; other site 608538003682 G4 box; other site 608538003683 G5 box; other site 608538003684 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 608538003685 Translation-initiation factor 2; Region: IF-2; pfam11987 608538003686 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 608538003687 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 608538003688 biotin synthase; Region: bioB; TIGR00433 608538003689 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 608538003690 FeS/SAM binding site; other site 608538003691 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 608538003692 Protein of unknown function (DUF328); Region: DUF328; cl01143 608538003693 Predicted methyltransferases [General function prediction only]; Region: COG0313 608538003694 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 608538003695 putative SAM binding site [chemical binding]; other site 608538003696 putative homodimer interface [polypeptide binding]; other site 608538003697 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 608538003698 Ligand Binding Site [chemical binding]; other site 608538003699 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 608538003700 Ligand Binding Site [chemical binding]; other site 608538003701 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 608538003702 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 608538003703 ATP binding site [chemical binding]; other site 608538003704 Mg2+ binding site [ion binding]; other site 608538003705 G-X-G motif; other site 608538003706 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 608538003707 anchoring element; other site 608538003708 dimer interface [polypeptide binding]; other site 608538003709 ATP binding site [chemical binding]; other site 608538003710 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 608538003711 active site 608538003712 putative metal-binding site [ion binding]; other site 608538003713 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 608538003714 Predicted methyltransferases [General function prediction only]; Region: COG1568 608538003715 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 608538003716 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 608538003717 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 608538003718 type II secretion system protein D; Region: type_II_gspD; TIGR02517 608538003719 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 608538003720 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 608538003721 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 608538003722 Type II secretory pathway, component PulC [Intracellular trafficking and secretion]; Region: PulC; COG3031 608538003723 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 608538003724 protein binding site [polypeptide binding]; other site 608538003725 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 608538003726 active site 608538003727 HslU subunit interaction site [polypeptide binding]; other site 608538003728 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 608538003729 Putative zinc ribbon domain; Region: DUF164; pfam02591 608538003730 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 608538003731 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 608538003732 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 608538003733 FeS/SAM binding site; other site 608538003734 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 608538003735 intersubunit interface [polypeptide binding]; other site 608538003736 active site 608538003737 Zn2+ binding site [ion binding]; other site 608538003738 glycine cleavage system protein H; Provisional; Region: PRK13380 608538003739 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 608538003740 lipoyl attachment site [posttranslational modification]; other site 608538003741 selenocysteine synthase; Provisional; Region: PRK04311 608538003742 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 608538003743 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 608538003744 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 608538003745 G1 box; other site 608538003746 putative GEF interaction site [polypeptide binding]; other site 608538003747 GTP/Mg2+ binding site [chemical binding]; other site 608538003748 Switch I region; other site 608538003749 G2 box; other site 608538003750 G3 box; other site 608538003751 Switch II region; other site 608538003752 G4 box; other site 608538003753 G5 box; other site 608538003754 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 608538003755 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 608538003756 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 608538003757 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 608538003758 active site 608538003759 comF family protein; Region: comF; TIGR00201 608538003760 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 608538003761 active site 608538003762 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 608538003763 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 608538003764 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 608538003765 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 608538003766 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 608538003767 DHH family; Region: DHH; pfam01368 608538003768 DHHA1 domain; Region: DHHA1; pfam02272 608538003769 Uncharacterized metal-binding protein (DUF2227); Region: DUF2227; cl01017 608538003770 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 608538003771 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 608538003772 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 608538003773 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 608538003774 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 608538003775 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 608538003776 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 608538003777 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 608538003778 active site 608538003779 dimer interface [polypeptide binding]; other site 608538003780 motif 1; other site 608538003781 motif 2; other site 608538003782 motif 3; other site 608538003783 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 608538003784 anticodon binding site; other site 608538003785 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 608538003786 Ligand Binding Site [chemical binding]; other site 608538003787 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 608538003788 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 608538003789 putative acyl-acceptor binding pocket; other site 608538003790 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 608538003791 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 608538003792 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 608538003793 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 608538003794 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 608538003795 trimerization site [polypeptide binding]; other site 608538003796 active site 608538003797 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 608538003798 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 608538003799 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 608538003800 CPxP motif; other site 608538003801 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 608538003802 NifU-like domain; Region: NifU; cl00484 608538003803 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 608538003804 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 608538003805 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 608538003806 shikimate binding site; other site 608538003807 NAD(P) binding site [chemical binding]; other site 608538003808 hypothetical protein; Provisional; Region: PRK04358 608538003809 Adenylation domain of RNA circularization proteins; Region: Adenylation_RNA_ligase; cd07894 608538003810 active site 608538003811 dimer interface [polypeptide binding]; other site 608538003812 GTP-binding protein LepA; Provisional; Region: PRK05433 608538003813 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 608538003814 G1 box; other site 608538003815 putative GEF interaction site [polypeptide binding]; other site 608538003816 GTP/Mg2+ binding site [chemical binding]; other site 608538003817 Switch I region; other site 608538003818 G2 box; other site 608538003819 G3 box; other site 608538003820 Switch II region; other site 608538003821 G4 box; other site 608538003822 G5 box; other site 608538003823 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 608538003824 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 608538003825 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 608538003826 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 608538003827 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 608538003828 generic binding surface II; other site 608538003829 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 608538003830 ATP binding site [chemical binding]; other site 608538003831 putative Mg++ binding site [ion binding]; other site 608538003832 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 608538003833 nucleotide binding region [chemical binding]; other site 608538003834 ATP-binding site [chemical binding]; other site 608538003835 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 608538003836 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 608538003837 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 608538003838 GMP synthase; Reviewed; Region: guaA; PRK00074 608538003839 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 608538003840 AMP/PPi binding site [chemical binding]; other site 608538003841 candidate oxyanion hole; other site 608538003842 catalytic triad [active] 608538003843 potential glutamine specificity residues [chemical binding]; other site 608538003844 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 608538003845 ATP Binding subdomain [chemical binding]; other site 608538003846 Ligand Binding sites [chemical binding]; other site 608538003847 Dimerization subdomain; other site 608538003848 bile acid transporter; Region: bass; TIGR00841 608538003849 Sodium Bile acid symporter family; Region: SBF; pfam01758 608538003850 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 608538003851 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 608538003852 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 608538003853 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 608538003854 Walker A/P-loop; other site 608538003855 ATP binding site [chemical binding]; other site 608538003856 Q-loop/lid; other site 608538003857 ABC transporter signature motif; other site 608538003858 Walker B; other site 608538003859 D-loop; other site 608538003860 H-loop/switch region; other site 608538003861 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 608538003862 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 608538003863 dimer interface [polypeptide binding]; other site 608538003864 conserved gate region; other site 608538003865 putative PBP binding loops; other site 608538003866 ABC-ATPase subunit interface; other site 608538003867 TOBE domain; Region: TOBE; cl01440 608538003868 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 608538003869 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 608538003870 TOBE domain; Region: TOBE; cl01440 608538003871 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 608538003872 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 608538003873 non-specific DNA binding site [nucleotide binding]; other site 608538003874 salt bridge; other site 608538003875 sequence-specific DNA binding site [nucleotide binding]; other site 608538003876 PBP superfamily domain; Region: PBP_like; pfam12727 608538003877 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 608538003878 metal-binding site [ion binding] 608538003879 mercuric reductase; Region: MerA; TIGR02053 608538003880 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 608538003881 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 608538003882 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 608538003883 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 608538003884 metal-binding site [ion binding] 608538003885 mercuric transport protein; pseudo gene. This gene contains a frameshift mutation. 608538003886 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 608538003887 putative homodimer interface [polypeptide binding]; other site 608538003888 putative homotetramer interface [polypeptide binding]; other site 608538003889 putative allosteric switch controlling residues; other site 608538003890 putative metal binding site [ion binding]; other site 608538003891 putative homodimer-homodimer interface [polypeptide binding]; other site 608538003892 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 608538003893 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 608538003894 GTP binding site; other site 608538003895 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 608538003896 metal-binding site [ion binding] 608538003897 Predicted Ser/Thr protein kinase [Signal transduction mechanisms]; Region: COG2112 608538003898 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 608538003899 active site 608538003900 substrate binding site [chemical binding]; other site 608538003901 ATP binding site [chemical binding]; other site 608538003902 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 608538003903 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 608538003904 minor groove reading motif; other site 608538003905 helix-hairpin-helix signature motif; other site 608538003906 substrate binding pocket [chemical binding]; other site 608538003907 active site 608538003908 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 608538003909 Cytochrome c; Region: Cytochrom_C; cl11414 608538003910 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 608538003911 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 608538003912 intrachain domain interface; other site 608538003913 interchain domain interface [polypeptide binding]; other site 608538003914 heme bH binding site [chemical binding]; other site 608538003915 heme bL binding site [chemical binding]; other site 608538003916 Qo binding site; other site 608538003917 interchain domain interface [polypeptide binding]; other site 608538003918 intrachain domain interface; other site 608538003919 Qi binding site; other site 608538003920 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 608538003921 Qo binding site; other site 608538003922 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 608538003923 iron-sulfur cluster [ion binding]; other site 608538003924 [2Fe-2S] cluster binding site [ion binding]; other site 608538003925 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 608538003926 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 608538003927 active site 608538003928 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 608538003929 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 608538003930 putative ADP-binding pocket [chemical binding]; other site 608538003931 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 608538003932 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 608538003933 MutS2 family protein; Region: mutS2; TIGR01069 608538003934 MutS domain III; Region: MutS_III; pfam05192 608538003935 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 608538003936 Walker A/P-loop; other site 608538003937 ATP binding site [chemical binding]; other site 608538003938 Q-loop/lid; other site 608538003939 ABC transporter signature motif; other site 608538003940 Walker B; other site 608538003941 D-loop; other site 608538003942 H-loop/switch region; other site 608538003943 Smr domain; Region: Smr; pfam01713 608538003944 pseudo gene. This gene contains a frameshift mutation.; transposase 608538003945 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 608538003946 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 608538003947 TPR motif; other site 608538003948 TPR repeat; Region: TPR_11; pfam13414 608538003949 binding surface 608538003950 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 608538003951 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 608538003952 Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All...; Region: TRX_GRX_like; cd02973 608538003953 catalytic residues [active] 608538003954 Methyltransferase domain; Region: Methyltransf_31; pfam13847 608538003955 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 608538003956 S-adenosylmethionine binding site [chemical binding]; other site 608538003957 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 608538003958 ligand binding site; other site 608538003959 glutamate-1-semialdehyde 2,1-aminomutase; Provisional; Region: PRK06209 608538003960 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 608538003961 inhibitor-cofactor binding pocket; inhibition site 608538003962 pyridoxal 5'-phosphate binding site [chemical binding]; other site 608538003963 catalytic residue [active] 608538003964 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 608538003965 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 608538003966 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 608538003967 active site 608538003968 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 608538003969 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 608538003970 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 608538003971 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 608538003972 Protein of unknown function (DUF434); Region: DUF434; cl04460 608538003973 NosL; Region: NosL; cl01769 608538003974 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 608538003975 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 608538003976 dimerization domain [polypeptide binding]; other site 608538003977 dimer interface [polypeptide binding]; other site 608538003978 catalytic residues [active] 608538003979 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 608538003980 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 608538003981 substrate-cofactor binding pocket; other site 608538003982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 608538003983 catalytic residue [active] 608538003984 MoxR-like ATPases [General function prediction only]; Region: COG0714 608538003985 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 608538003986 Walker A motif; other site 608538003987 ATP binding site [chemical binding]; other site 608538003988 Walker B motif; other site 608538003989 arginine finger; other site 608538003990 reverse gyrase; Reviewed; Region: PRK09401 608538003991 DEAD/DEAH box helicase; Region: DEAD; pfam00270 608538003992 ATP binding site [chemical binding]; other site 608538003993 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 608538003994 active site 608538003995 metal binding site [ion binding]; metal-binding site 608538003996 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 608538003997 domain I; other site 608538003998 DNA binding groove [nucleotide binding] 608538003999 phosphate binding site [ion binding]; other site 608538004000 domain II; other site 608538004001 domain III; other site 608538004002 nucleotide binding site [chemical binding]; other site 608538004003 catalytic site [active] 608538004004 domain IV; other site 608538004005 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 608538004006 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 608538004007 TPP-binding site; other site 608538004008 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 608538004009 PYR/PP interface [polypeptide binding]; other site 608538004010 dimer interface [polypeptide binding]; other site 608538004011 TPP binding site [chemical binding]; other site 608538004012 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 608538004013 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 608538004014 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 608538004015 putative NAD(P) binding site [chemical binding]; other site 608538004016 active site 608538004017 putative substrate binding site [chemical binding]; other site 608538004018 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 608538004019 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 608538004020 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 608538004021 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 608538004022 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 608538004023 motif II; other site 608538004024 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 608538004025 Domain of unknown function DUF29; Region: DUF29; pfam01724 608538004026 DNA primase, catalytic core; Region: dnaG; TIGR01391 608538004027 CHC2 zinc finger; Region: zf-CHC2; pfam01807 608538004028 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 608538004029 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 608538004030 active site 608538004031 metal binding site [ion binding]; metal-binding site 608538004032 interdomain interaction site; other site 608538004033 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 608538004034 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 608538004035 active site 608538004036 catalytic residues [active] 608538004037 metal binding site [ion binding]; metal-binding site 608538004038 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 608538004039 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 608538004040 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 608538004041 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 608538004042 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 608538004043 Catalytic dyad [active] 608538004044 UGMP family protein; Validated; Region: PRK09604 608538004045 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 608538004046 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 608538004047 active site 608538004048 Ap6A binding site [chemical binding]; other site 608538004049 nudix motif; other site 608538004050 metal binding site [ion binding]; metal-binding site 608538004051 threonine synthase; Reviewed; Region: PRK06721 608538004052 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 608538004053 homodimer interface [polypeptide binding]; other site 608538004054 pyridoxal 5'-phosphate binding site [chemical binding]; other site 608538004055 catalytic residue [active] 608538004056 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 608538004057 Thymidylate synthase complementing protein; Region: Thy1; cl03630 608538004058 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 608538004059 hypothetical protein; Provisional; Region: PRK11820 608538004060 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 608538004061 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 608538004062 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 608538004063 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 608538004064 catalytic residues [active] 608538004065 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 608538004066 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 608538004067 ATP synthase subunit C; Region: ATP-synt_C; cl00466 608538004068 hypothetical protein; Provisional; Region: PRK14382 608538004069 membrane protein insertase; Provisional; Region: PRK01318 608538004070 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 608538004071 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 608538004072 selenium donor protein; Region: selD; TIGR00476 608538004073 dimerization interface [polypeptide binding]; other site 608538004074 putative ATP binding site [chemical binding]; other site 608538004075 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 608538004076 MoaE interaction surface [polypeptide binding]; other site 608538004077 MoeB interaction surface [polypeptide binding]; other site 608538004078 thiocarboxylated glycine; other site 608538004079 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 608538004080 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 608538004081 putative active site [active] 608538004082 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 608538004083 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 608538004084 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 608538004085 active site 608538004086 Zn binding site [ion binding]; other site 608538004087 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 608538004088 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 608538004089 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 608538004090 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 608538004091 pyruvate carboxylase subunit B; Validated; Region: PRK09282 608538004092 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 608538004093 active site 608538004094 catalytic residues [active] 608538004095 metal binding site [ion binding]; metal-binding site 608538004096 homodimer binding site [polypeptide binding]; other site 608538004097 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 608538004098 carboxyltransferase (CT) interaction site; other site 608538004099 biotinylation site [posttranslational modification]; other site 608538004100 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 608538004101 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 608538004102 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 608538004103 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 608538004104 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 608538004105 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 608538004106 Chorismate mutase type II; Region: CM_2; pfam01817 608538004107 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 608538004108 Prephenate dehydratase; Region: PDT; pfam00800 608538004109 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 608538004110 putative L-Phe binding site [chemical binding]; other site 608538004111 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 608538004112 Protein of unknown function DUF58; Region: DUF58; pfam01882 608538004113 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 608538004114 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 608538004115 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 608538004116 Mechanosensitive ion channel; Region: MS_channel; pfam00924 608538004117 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 608538004118 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 608538004119 putative active site [active] 608538004120 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 608538004121 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 608538004122 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 608538004123 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 608538004124 putative ligand binding site [chemical binding]; other site 608538004125 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 608538004126 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 608538004127 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 608538004128 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 608538004129 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 608538004130 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 608538004131 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 608538004132 binding surface 608538004133 TPR motif; other site 608538004134 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 608538004135 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 608538004136 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 608538004137 P loop; other site 608538004138 GTP binding site [chemical binding]; other site 608538004139 NADH:ubiquinone oxidoreductase subunit 3 (chain A) [Energy production and conversion]; Region: NuoA; COG0838 608538004140 NADH dehydrogenase subunit B; Validated; Region: PRK06411 608538004141 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 608538004142 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 608538004143 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 608538004144 NADH dehydrogenase subunit D; Validated; Region: PRK06075 608538004145 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 608538004146 Ligand Binding Site [chemical binding]; other site 608538004147 pteridine reductase; Provisional; Region: PRK09135 608538004148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 608538004149 NAD(P) binding site [chemical binding]; other site 608538004150 active site 608538004151 threonine synthase; Validated; Region: PRK07591 608538004152 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 608538004153 homodimer interface [polypeptide binding]; other site 608538004154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 608538004155 catalytic residue [active] 608538004156 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 608538004157 catalytic residues [active] 608538004158 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 608538004159 ATP-grasp domain; Region: ATP-grasp; pfam02222 608538004160 L-aspartate oxidase; Provisional; Region: PRK06175 608538004161 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 608538004162 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 608538004163 Domain of unknown function (DUF202); Region: DUF202; cl09954 608538004164 Domain of unknown function (DUF202); Region: DUF202; cl09954 608538004165 adenylosuccinate lyase; Provisional; Region: PRK07492 608538004166 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 608538004167 tetramer interface [polypeptide binding]; other site 608538004168 active site 608538004169 Adenylosuccinate lyase C-terminus; Region: ADSL_C; pfam10397 608538004170 Domain of unknown function DUF29; Region: DUF29; pfam01724 608538004171 amidophosphoribosyltransferase; Region: purF; TIGR01134 608538004172 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 608538004173 active site 608538004174 tetramer interface [polypeptide binding]; other site 608538004175 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 608538004176 active site 608538004177 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 608538004178 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 608538004179 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 608538004180 dimer interface [polypeptide binding]; other site 608538004181 motif 1; other site 608538004182 active site 608538004183 motif 2; other site 608538004184 motif 3; other site 608538004185 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 608538004186 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 608538004187 RNA binding site [nucleotide binding]; other site 608538004188 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 608538004189 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 608538004190 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 608538004191 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 608538004192 binding surface 608538004193 TPR motif; other site 608538004194 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 608538004195 G1 box; other site 608538004196 GTP/Mg2+ binding site [chemical binding]; other site 608538004197 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 608538004198 G2 box; other site 608538004199 Switch I region; other site 608538004200 G3 box; other site 608538004201 Switch II region; other site 608538004202 G4 box; other site 608538004203 G5 box; other site 608538004204 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 608538004205 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 608538004206 active site 608538004207 phosphorylation site [posttranslational modification] 608538004208 intermolecular recognition site; other site 608538004209 dimerization interface [polypeptide binding]; other site 608538004210 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 608538004211 DNA binding site [nucleotide binding] 608538004212 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 608538004213 HAMP domain; Region: HAMP; pfam00672 608538004214 dimerization interface [polypeptide binding]; other site 608538004215 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 608538004216 dimer interface [polypeptide binding]; other site 608538004217 phosphorylation site [posttranslational modification] 608538004218 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 608538004219 ATP binding site [chemical binding]; other site 608538004220 Mg2+ binding site [ion binding]; other site 608538004221 G-X-G motif; other site 608538004222 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 608538004223 TPR motif; other site 608538004224 hypothetical protein; pseudo gene. This region encodes a fragment similar to HTH_0641, HTH_1089, HTH_1359 and HTH_1424. 608538004225 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 608538004226 metal binding site 2 [ion binding]; metal-binding site 608538004227 putative DNA binding helix; other site 608538004228 metal binding site 1 [ion binding]; metal-binding site 608538004229 dimer interface [polypeptide binding]; other site 608538004230 structural Zn2+ binding site [ion binding]; other site 608538004231 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 608538004232 aromatic arch; other site 608538004233 DCoH dimer interaction site [polypeptide binding]; other site 608538004234 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 608538004235 DCoH tetramer interaction site [polypeptide binding]; other site 608538004236 substrate binding site [chemical binding]; other site 608538004237 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 608538004238 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 608538004239 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 608538004240 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 608538004241 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 608538004242 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 608538004243 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 608538004244 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 608538004245 RNA/DNA hybrid binding site [nucleotide binding]; other site 608538004246 active site 608538004247 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 608538004248 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 608538004249 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 608538004250 pyruvate carboxylase subunit B; Validated; Region: PRK09282 608538004251 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 608538004252 active site 608538004253 catalytic residues [active] 608538004254 metal binding site [ion binding]; metal-binding site 608538004255 homodimer binding site [polypeptide binding]; other site 608538004256 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 608538004257 carboxyltransferase (CT) interaction site; other site 608538004258 biotinylation site [posttranslational modification]; other site 608538004259 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 608538004260 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 608538004261 active site 608538004262 phosphorylation site [posttranslational modification] 608538004263 intermolecular recognition site; other site 608538004264 dimerization interface [polypeptide binding]; other site 608538004265 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 608538004266 DNA binding site [nucleotide binding] 608538004267 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 608538004268 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 608538004269 putative active site [active] 608538004270 putative metal binding site [ion binding]; other site 608538004271 CTP synthetase; Validated; Region: pyrG; PRK05380 608538004272 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 608538004273 Catalytic site [active] 608538004274 active site 608538004275 UTP binding site [chemical binding]; other site 608538004276 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 608538004277 active site 608538004278 putative oxyanion hole; other site 608538004279 catalytic triad [active] 608538004280 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 608538004281 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 608538004282 Moco binding site; other site 608538004283 metal coordination site [ion binding]; other site 608538004284 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 608538004285 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 608538004286 RNA binding surface [nucleotide binding]; other site 608538004287 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 608538004288 active site 608538004289 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 608538004290 catalytic residues [active] 608538004291 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 608538004292 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 608538004293 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 608538004294 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 608538004295 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 608538004296 Cytochrome c [Energy production and conversion]; Region: COG3258 608538004297 Cytochrome c; Region: Cytochrom_C; pfam00034 608538004298 Cytochrome c; Region: Cytochrom_C; cl11414 608538004299 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 608538004300 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 608538004301 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 608538004302 ATP-dependent DNA ligase; Provisional; Region: PRK01109 608538004303 Adenylation domain of archaeal and bacterial LigB-like DNA ligases; Region: Adenylation_DNA_ligase_Arch_LigB; cd07901 608538004304 active site 608538004305 DNA binding site [nucleotide binding] 608538004306 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase I is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_I; cd07969 608538004307 DNA binding site [nucleotide binding] 608538004308 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 608538004309 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 608538004310 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 608538004311 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 608538004312 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 608538004313 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 608538004314 DNA binding residues [nucleotide binding] 608538004315 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 608538004316 FMN binding site [chemical binding]; other site 608538004317 dimer interface [polypeptide binding]; other site 608538004318 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 608538004319 active site 608538004320 Predicted metal-binding protein (DUF2103); Region: DUF2103; cl01651 608538004321 Type III pantothenate kinase; Region: Pan_kinase; cl17198 608538004322 homoserine kinase; Provisional; Region: PRK01212 608538004323 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 608538004324 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 608538004325 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 608538004326 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 608538004327 NlpC/P60 family; Region: NLPC_P60; cl17555 608538004328 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 608538004329 ApbE family; Region: ApbE; pfam02424 608538004330 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 608538004331 Subunit I/III interface [polypeptide binding]; other site 608538004332 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 608538004333 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 608538004334 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 608538004335 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 608538004336 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 608538004337 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 608538004338 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 608538004339 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 608538004340 Hemerythrin; Region: Hemerythrin; cd12107 608538004341 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 608538004342 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 608538004343 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 608538004344 Low-spin heme binding site [chemical binding]; other site 608538004345 D-pathway; other site 608538004346 Putative water exit pathway; other site 608538004347 Binuclear center (active site) [active] 608538004348 K-pathway; other site 608538004349 Putative proton exit pathway; other site 608538004350 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 608538004351 Cu(I) binding site [ion binding]; other site 608538004352 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 608538004353 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 608538004354 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 608538004355 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 608538004356 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 608538004357 30S subunit binding site; other site 608538004358 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 608538004359 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 608538004360 active site 608538004361 substrate binding site [chemical binding]; other site 608538004362 cosubstrate binding site; other site 608538004363 catalytic site [active] 608538004364 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 608538004365 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 608538004366 tetramer interface [polypeptide binding]; other site 608538004367 TPP-binding site [chemical binding]; other site 608538004368 heterodimer interface [polypeptide binding]; other site 608538004369 phosphorylation loop region [posttranslational modification] 608538004370 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 608538004371 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 608538004372 alpha subunit interface [polypeptide binding]; other site 608538004373 TPP binding site [chemical binding]; other site 608538004374 heterodimer interface [polypeptide binding]; other site 608538004375 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 608538004376 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 608538004377 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 608538004378 E3 interaction surface; other site 608538004379 lipoyl attachment site [posttranslational modification]; other site 608538004380 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 608538004381 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 608538004382 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 608538004383 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 608538004384 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 608538004385 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 608538004386 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 608538004387 active site 608538004388 dimerization interface [polypeptide binding]; other site 608538004389 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 608538004390 Ligand Binding Site [chemical binding]; other site 608538004391 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 608538004392 Ligand Binding Site [chemical binding]; other site 608538004393 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 608538004394 binding surface 608538004395 TPR motif; other site 608538004396 Tetratricopeptide repeat; Region: TPR_16; pfam13432 608538004397 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 608538004398 binding surface 608538004399 TPR motif; other site 608538004400 Tetratricopeptide repeat; Region: TPR_16; pfam13432 608538004401 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 608538004402 binding surface 608538004403 TPR motif; other site 608538004404 Tetratricopeptide repeat; Region: TPR_15; pfam13429 608538004405 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 608538004406 TPR motif; other site 608538004407 binding surface 608538004408 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 608538004409 TPR motif; other site 608538004410 binding surface 608538004411 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 608538004412 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 608538004413 active site 608538004414 phosphorylation site [posttranslational modification] 608538004415 intermolecular recognition site; other site 608538004416 dimerization interface [polypeptide binding]; other site 608538004417 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 608538004418 Walker A motif; other site 608538004419 ATP binding site [chemical binding]; other site 608538004420 Walker B motif; other site 608538004421 arginine finger; other site 608538004422 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 608538004423 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 608538004424 active site 608538004425 phosphorylation site [posttranslational modification] 608538004426 intermolecular recognition site; other site 608538004427 dimerization interface [polypeptide binding]; other site 608538004428 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 608538004429 DNA binding site [nucleotide binding] 608538004430 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 608538004431 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 608538004432 dimer interface [polypeptide binding]; other site 608538004433 phosphorylation site [posttranslational modification] 608538004434 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 608538004435 ATP binding site [chemical binding]; other site 608538004436 Mg2+ binding site [ion binding]; other site 608538004437 G-X-G motif; other site 608538004438 Outer membrane efflux protein; Region: OEP; pfam02321 608538004439 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 608538004440 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 608538004441 HlyD family secretion protein; Region: HlyD_3; pfam13437 608538004442 putative membrane fusion protein; Region: TIGR02828 608538004443 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 608538004444 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 608538004445 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 608538004446 Sulfate transporter family; Region: Sulfate_transp; pfam00916 608538004447 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 608538004448 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 608538004449 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 608538004450 active site 608538004451 (T/H)XGH motif; other site 608538004452 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 608538004453 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 608538004454 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 608538004455 hypothetical protein; pseudo gene. This gene has 5'-terminal deletion. 608538004456 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 608538004457 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 608538004458 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 608538004459 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 608538004460 Cytochrome c [Energy production and conversion]; Region: COG3258 608538004461 Cytochrome c [Energy production and conversion]; Region: COG3258 608538004462 Cytochrome c [Energy production and conversion]; Region: COG3258 608538004463 Cytochrome c; Region: Cytochrom_C; pfam00034 608538004464 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 608538004465 active site 608538004466 metal binding site [ion binding]; metal-binding site 608538004467 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 608538004468 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 608538004469 Domain of unknown function DUF302; Region: DUF302; cl01364 608538004470 Domain of unknown function DUF302; Region: DUF302; cl01364 608538004471 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 608538004472 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 608538004473 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 608538004474 nucleotide binding site/active site [active] 608538004475 HIT family signature motif; other site 608538004476 catalytic residue [active] 608538004477 Uncharacterized conserved protein [Function unknown]; Region: COG1565 608538004478 tartrate dehydrogenase; Region: TTC; TIGR02089 608538004479 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 608538004480 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 608538004481 Cysteine-rich domain; Region: CCG; pfam02754 608538004482 Cysteine-rich domain; Region: CCG; pfam02754 608538004483 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 608538004484 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 608538004485 pyridoxal 5'-phosphate binding site [chemical binding]; other site 608538004486 homodimer interface [polypeptide binding]; other site 608538004487 catalytic residue [active] 608538004488 Protein of unknown function, DUF399; Region: DUF399; pfam04187 608538004489 recombination protein RecR; Region: recR; TIGR00615 608538004490 RecR protein; Region: RecR; pfam02132 608538004491 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 608538004492 putative active site [active] 608538004493 putative metal-binding site [ion binding]; other site 608538004494 tetramer interface [polypeptide binding]; other site 608538004495 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 608538004496 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 608538004497 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 608538004498 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 608538004499 lipoyl attachment site [posttranslational modification]; other site 608538004500 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 608538004501 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 608538004502 tetramer interface [polypeptide binding]; other site 608538004503 pyridoxal 5'-phosphate binding site [chemical binding]; other site 608538004504 catalytic residue [active] 608538004505 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 608538004506 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 608538004507 pseudaminic acid synthase; Region: PseI; TIGR03586 608538004508 NeuB family; Region: NeuB; pfam03102 608538004509 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 608538004510 NeuB binding interface [polypeptide binding]; other site 608538004511 putative substrate binding site [chemical binding]; other site 608538004512 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 608538004513 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 608538004514 NAD(P) binding site [chemical binding]; other site 608538004515 homodimer interface [polypeptide binding]; other site 608538004516 substrate binding site [chemical binding]; other site 608538004517 active site 608538004518 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 608538004519 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 608538004520 inhibitor-cofactor binding pocket; inhibition site 608538004521 pyridoxal 5'-phosphate binding site [chemical binding]; other site 608538004522 catalytic residue [active] 608538004523 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 608538004524 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 608538004525 active site 608538004526 catalytic tetrad [active] 608538004527 Clp amino terminal domain; Region: Clp_N; pfam02861 608538004528 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 608538004529 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 608538004530 Walker A motif; other site 608538004531 ATP binding site [chemical binding]; other site 608538004532 Walker B motif; other site 608538004533 arginine finger; other site 608538004534 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 608538004535 Walker A motif; other site 608538004536 ATP binding site [chemical binding]; other site 608538004537 Walker B motif; other site 608538004538 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 608538004539 GTP-binding protein Der; Reviewed; Region: PRK00093 608538004540 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 608538004541 G1 box; other site 608538004542 GTP/Mg2+ binding site [chemical binding]; other site 608538004543 Switch I region; other site 608538004544 G2 box; other site 608538004545 Switch II region; other site 608538004546 G3 box; other site 608538004547 G4 box; other site 608538004548 G5 box; other site 608538004549 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 608538004550 G1 box; other site 608538004551 GTP/Mg2+ binding site [chemical binding]; other site 608538004552 Switch I region; other site 608538004553 G2 box; other site 608538004554 G3 box; other site 608538004555 Switch II region; other site 608538004556 G4 box; other site 608538004557 G5 box; other site 608538004558 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 608538004559 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 608538004560 Walker A/P-loop; other site 608538004561 ATP binding site [chemical binding]; other site 608538004562 Q-loop/lid; other site 608538004563 ABC transporter signature motif; other site 608538004564 Walker B; other site 608538004565 D-loop; other site 608538004566 H-loop/switch region; other site 608538004567 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 608538004568 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 608538004569 nucleotide binding site/active site [active] 608538004570 HIT family signature motif; other site 608538004571 catalytic residue [active] 608538004572 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 608538004573 catalytic residues [active] 608538004574 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 608538004575 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 608538004576 N-terminal plug; other site 608538004577 ligand-binding site [chemical binding]; other site 608538004578 Response regulator receiver domain; Region: Response_reg; pfam00072 608538004579 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 608538004580 active site 608538004581 phosphorylation site [posttranslational modification] 608538004582 intermolecular recognition site; other site 608538004583 dimerization interface [polypeptide binding]; other site 608538004584 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 608538004585 Histidine kinase; Region: HisKA_2; pfam07568 608538004586 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 608538004587 Mg2+ binding site [ion binding]; other site 608538004588 NADH:ubiquinone oxidoreductase subunit 1 (chain H) [Energy production and conversion]; Region: NuoH; COG1005 608538004589 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 608538004590 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 608538004591 Thiamine pyrophosphate (TPP family), Pyruvate ferredoxin/flavodoxin oxidoreductase (PFOR) subfamily, TPP-binding module; PFOR catalyzes the oxidative decarboxylation of pyruvate to form acetyl-CoA, a crucial step in many metabolic pathways. Archaea; Region: TPP_PFOR; cd02018 608538004592 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 608538004593 TPP-binding site [chemical binding]; other site 608538004594 dimer interface [polypeptide binding]; other site 608538004595 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 608538004596 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 608538004597 dimer interface [polypeptide binding]; other site 608538004598 PYR/PP interface [polypeptide binding]; other site 608538004599 TPP binding site [chemical binding]; other site 608538004600 substrate binding site [chemical binding]; other site 608538004601 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 608538004602 CO dehydrogenase beta subunit/acetyl-CoA synthase epsilon subunit; Region: CO_dh; pfam02552 608538004603 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, delta subunit [Energy production and conversion]; Region: COG1144 608538004604 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 608538004605 protein binding site [polypeptide binding]; other site 608538004606 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 608538004607 Active site serine [active] 608538004608 Predicted kinase [General function prediction only]; Region: COG0645 608538004609 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 608538004610 ATP-binding site [chemical binding]; other site 608538004611 Gluconate-6-phosphate binding site [chemical binding]; other site 608538004612 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 608538004613 catalytic residues [active] 608538004614 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 608538004615 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 608538004616 active site 608538004617 catalytic site [active] 608538004618 substrate binding site [chemical binding]; other site 608538004619 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 608538004620 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 608538004621 ligand binding site [chemical binding]; other site 608538004622 flexible hinge region; other site 608538004623 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 608538004624 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 608538004625 metal binding triad; other site 608538004626 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 608538004627 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 608538004628 Na binding site [ion binding]; other site 608538004629 Protein of unknown function, DUF485; Region: DUF485; pfam04341 608538004630 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 608538004631 thiS-thiF/thiG interaction site; other site 608538004632 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 608538004633 ThiS interaction site; other site 608538004634 putative active site [active] 608538004635 tetramer interface [polypeptide binding]; other site 608538004636 protoporphyrinogen oxidase; Region: proto_IX_ox; TIGR00562 608538004637 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 608538004638 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 608538004639 active site 608538004640 intersubunit interactions; other site 608538004641 catalytic residue [active] 608538004642 RIP metalloprotease RseP; Region: TIGR00054 608538004643 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 608538004644 active site 608538004645 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 608538004646 protein binding site [polypeptide binding]; other site 608538004647 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 608538004648 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 608538004649 putative substrate binding region [chemical binding]; other site 608538004650 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 608538004651 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 608538004652 V4R domain; Region: V4R; cl15268 608538004653 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 608538004654 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 608538004655 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 608538004656 NAD binding site [chemical binding]; other site 608538004657 homodimer interface [polypeptide binding]; other site 608538004658 active site 608538004659 substrate binding site [chemical binding]; other site 608538004660 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 608538004661 Clp amino terminal domain; Region: Clp_N; pfam02861 608538004662 Clp amino terminal domain; Region: Clp_N; pfam02861 608538004663 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 608538004664 Walker A motif; other site 608538004665 ATP binding site [chemical binding]; other site 608538004666 Walker B motif; other site 608538004667 arginine finger; other site 608538004668 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 608538004669 Walker A motif; other site 608538004670 ATP binding site [chemical binding]; other site 608538004671 Walker B motif; other site 608538004672 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 608538004673 cation-transport ATPase; pseudo gene. This gene contains a frameshit mutation. 608538004674 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 608538004675 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 608538004676 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 608538004677 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 608538004678 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 608538004679 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 608538004680 Actin cytoskeleton-regulatory complex protein END3; Region: End3; pfam12761 608538004681 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 608538004682 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 608538004683 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 608538004684 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 608538004685 active site 608538004686 motif I; other site 608538004687 motif II; other site 608538004688 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 608538004689 Cupin domain; Region: Cupin_2; pfam07883 608538004690 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 608538004691 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 608538004692 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 608538004693 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 608538004694 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 608538004695 Nitrogen regulatory protein P-II; Region: P-II; smart00938 608538004696 glutamine synthetase, type I; Region: GlnA; TIGR00653 608538004697 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 608538004698 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 608538004699 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 608538004700 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 608538004701 HAD-superfamily subfamily IIA hydrolase, TIGR01458; Region: HAD-SF-IIA-hyp3 608538004702 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 608538004703 active site 608538004704 motif I; other site 608538004705 motif II; other site 608538004706 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 608538004707 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 608538004708 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 608538004709 catalytic triad [active] 608538004710 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 608538004711 RNase III inhibitor; Provisional; Region: PRK00431 608538004712 ADP-ribose binding site [chemical binding]; other site 608538004713 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 608538004714 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 608538004715 motif 1; other site 608538004716 dimer interface [polypeptide binding]; other site 608538004717 active site 608538004718 motif 2; other site 608538004719 motif 3; other site 608538004720 S-adenosylmethionine synthetase; Validated; Region: PRK05250 608538004721 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 608538004722 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 608538004723 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 608538004724 seryl-tRNA synthetase; Provisional; Region: PRK05431 608538004725 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 608538004726 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 608538004727 dimer interface [polypeptide binding]; other site 608538004728 active site 608538004729 motif 1; other site 608538004730 motif 2; other site 608538004731 motif 3; other site 608538004732 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 608538004733 nudix motif; other site 608538004734 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 608538004735 active site residue [active] 608538004736 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 608538004737 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 608538004738 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 608538004739 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 608538004740 Hemerythrin; Region: Hemerythrin; cd12107 608538004741 Fe binding site [ion binding]; other site 608538004742 NIL domain; Region: NIL; pfam09383 608538004743 thiamine-monophosphate kinase; Region: thiL; TIGR01379 608538004744 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 608538004745 ATP binding site [chemical binding]; other site 608538004746 dimerization interface [polypeptide binding]; other site 608538004747 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 608538004748 SmpB-tmRNA interface; other site 608538004749 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 608538004750 Protein of unknown function DUF116; Region: DUF116; pfam01976 608538004751 CO dehydrogenase beta subunit/acetyl-CoA synthase epsilon subunit; Region: CO_dh; pfam02552 608538004752 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 608538004753 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 608538004754 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 608538004755 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 608538004756 phenylalanine ammonia-lyase; Region: PLN02457 608538004757 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 608538004758 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_4; cd08500 608538004759 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 608538004760 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 608538004761 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 608538004762 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 608538004763 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 608538004764 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 608538004765 putative active site [active] 608538004766 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 608538004767 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 608538004768 dimer interface [polypeptide binding]; other site 608538004769 substrate binding site [chemical binding]; other site 608538004770 metal binding sites [ion binding]; metal-binding site 608538004771 Protein of unknown function (DUF420); Region: DUF420; cl00989 608538004772 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 608538004773 metal binding site 2 [ion binding]; metal-binding site 608538004774 putative DNA binding helix; other site 608538004775 metal binding site 1 [ion binding]; metal-binding site 608538004776 dimer interface [polypeptide binding]; other site 608538004777 structural Zn2+ binding site [ion binding]; other site 608538004778 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 608538004779 DNA methylase; Region: N6_N4_Mtase; pfam01555 608538004780 DEAD-like helicases superfamily; Region: DEXDc; smart00487 608538004781 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 608538004782 ATP binding site [chemical binding]; other site 608538004783 putative Mg++ binding site [ion binding]; other site 608538004784 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 608538004785 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 608538004786 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 608538004787 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 608538004788 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 608538004789 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 608538004790 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 608538004791 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 608538004792 ligand binding site [chemical binding]; other site 608538004793 flexible hinge region; other site 608538004794 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 608538004795 non-specific DNA interactions [nucleotide binding]; other site 608538004796 DNA binding site [nucleotide binding] 608538004797 sequence specific DNA binding site [nucleotide binding]; other site 608538004798 putative cAMP binding site [chemical binding]; other site 608538004799 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 608538004800 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 608538004801 purine monophosphate binding site [chemical binding]; other site 608538004802 dimer interface [polypeptide binding]; other site 608538004803 putative catalytic residues [active] 608538004804 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 608538004805 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 608538004806 Preprotein translocase subunit; Region: YajC; pfam02699 608538004807 acetyl-CoA carboxylase, carboxyl transferase, beta subunit; Region: accD; TIGR00515 608538004808 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 608538004809 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 608538004810 ScpA/B protein; Region: ScpA_ScpB; cl00598 608538004811 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 608538004812 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 608538004813 S-adenosylmethionine binding site [chemical binding]; other site 608538004814 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 608538004815 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 608538004816 ketol-acid reductoisomerase; Provisional; Region: PRK05479 608538004817 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 608538004818 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 608538004819 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 608538004820 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 608538004821 RibD C-terminal domain; Region: RibD_C; cl17279 608538004822 hypothetical protein; pseudo gene. This gene has 5'-terminal deletion. 608538004823 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; cl17491 608538004824 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 608538004825 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 608538004826 FMN binding site [chemical binding]; other site 608538004827 substrate binding site [chemical binding]; other site 608538004828 putative catalytic residue [active] 608538004829 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 608538004830 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 608538004831 Glucose inhibited division protein A; Region: GIDA; pfam01134 608538004832 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 608538004833 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 608538004834 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 608538004835 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 608538004836 Walker A/P-loop; other site 608538004837 ATP binding site [chemical binding]; other site 608538004838 Q-loop/lid; other site 608538004839 ABC transporter signature motif; other site 608538004840 Walker B; other site 608538004841 D-loop; other site 608538004842 H-loop/switch region; other site 608538004843 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 608538004844 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 608538004845 Protein export membrane protein; Region: SecD_SecF; pfam02355 608538004846 Tetratricopeptide repeat; Region: TPR_16; pfam13432 608538004847 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 608538004848 binding surface 608538004849 TPR motif; other site 608538004850 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 608538004851 phosphoenolpyruvate synthase; Validated; Region: PRK06464 608538004852 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 608538004853 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 608538004854 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 608538004855 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 608538004856 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 608538004857 type II secretion system protein D; Region: type_II_gspD; TIGR02517 608538004858 Secretin and TonB N terminus short domain; Region: STN; smart00965 608538004859 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 608538004860 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 608538004861 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 608538004862 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 608538004863 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 608538004864 S-adenosylmethionine binding site [chemical binding]; other site 608538004865 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 608538004866 Ligand binding site; other site 608538004867 Putative Catalytic site; other site 608538004868 DXD motif; other site 608538004869 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 608538004870 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 608538004871 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 608538004872 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 608538004873 Uncharacterized conserved protein [Function unknown]; Region: COG1624 608538004874 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 608538004875 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 608538004876 dihydropteroate synthase; Region: DHPS; TIGR01496 608538004877 substrate binding pocket [chemical binding]; other site 608538004878 dimer interface [polypeptide binding]; other site 608538004879 inhibitor binding site; inhibition site 608538004880 DNA adenine methylase (dam); Region: dam; TIGR00571 608538004881 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 608538004882 putative active site [active] 608538004883 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 608538004884 thymidylate kinase; Validated; Region: tmk; PRK00698 608538004885 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 608538004886 TMP-binding site; other site 608538004887 ATP-binding site [chemical binding]; other site 608538004888 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 608538004889 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 608538004890 catalytic triad [active] 608538004891 bifunctional phosphoglucose/phosphomannose isomerase; Validated; Region: PRK08674 608538004892 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_1; cd05017 608538004893 dimer interface [polypeptide binding]; other site 608538004894 active site 608538004895 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_2; cd05637 608538004896 dimer interface [polypeptide binding]; other site 608538004897 active site 608538004898 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 608538004899 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 608538004900 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 608538004901 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 608538004902 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 608538004903 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 608538004904 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 608538004905 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 608538004906 putative dimer interface [polypeptide binding]; other site 608538004907 [2Fe-2S] cluster binding site [ion binding]; other site 608538004908 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 608538004909 putative dimer interface [polypeptide binding]; other site 608538004910 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 608538004911 SLBB domain; Region: SLBB; pfam10531 608538004912 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 608538004913 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 608538004914 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 608538004915 catalytic loop [active] 608538004916 iron binding site [ion binding]; other site 608538004917 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 608538004918 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 608538004919 [4Fe-4S] binding site [ion binding]; other site 608538004920 molybdopterin cofactor binding site; other site 608538004921 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 608538004922 molybdopterin cofactor binding site; other site 608538004923 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 608538004924 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 608538004925 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 608538004926 23S rRNA binding site [nucleotide binding]; other site 608538004927 L21 binding site [polypeptide binding]; other site 608538004928 L13 binding site [polypeptide binding]; other site 608538004929 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 608538004930 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 608538004931 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 608538004932 dimer interface [polypeptide binding]; other site 608538004933 motif 1; other site 608538004934 active site 608538004935 motif 2; other site 608538004936 motif 3; other site 608538004937 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 608538004938 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 608538004939 dimer interface [polypeptide binding]; other site 608538004940 phosphorylation site [posttranslational modification] 608538004941 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 608538004942 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 608538004943 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 608538004944 active site 608538004945 phosphorylation site [posttranslational modification] 608538004946 intermolecular recognition site; other site 608538004947 dimerization interface [polypeptide binding]; other site 608538004948 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 608538004949 DNA binding site [nucleotide binding] 608538004950 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 608538004951 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 608538004952 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 608538004953 E3 interaction surface; other site 608538004954 lipoyl attachment site [posttranslational modification]; other site 608538004955 HlyD family secretion protein; Region: HlyD_3; pfam13437 608538004956 Outer membrane efflux protein; Region: OEP; pfam02321 608538004957 Outer membrane efflux protein; Region: OEP; pfam02321 608538004958 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 608538004959 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 608538004960 FeS/SAM binding site; other site 608538004961 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 608538004962 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 608538004963 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 608538004964 Protein of unknown function (DUF989); Region: DUF989; pfam06181 608538004965 Protein of unknown function (DUF461); Region: DUF461; pfam04314 608538004966 hypothetical protein; Provisional; Region: PRK00468 608538004967 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 608538004968 ribosomal protein S16; Region: S16; TIGR00002 608538004969 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 608538004970 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 608538004971 metal-binding site [ion binding] 608538004972 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 608538004973 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 608538004974 motif II; other site 608538004975 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 608538004976 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 608538004977 substrate binding site [chemical binding]; other site 608538004978 active site 608538004979 catalytic residues [active] 608538004980 heterodimer interface [polypeptide binding]; other site 608538004981 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 608538004982 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 608538004983 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 608538004984 carboxyltransferase (CT) interaction site; other site 608538004985 biotinylation site [posttranslational modification]; other site 608538004986 elongation factor P; Validated; Region: PRK00529 608538004987 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 608538004988 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 608538004989 RNA binding site [nucleotide binding]; other site 608538004990 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 608538004991 RNA binding site [nucleotide binding]; other site 608538004992 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 608538004993 PBP superfamily domain; Region: PBP_like_2; cl17296 608538004994 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 608538004995 dimer interface [polypeptide binding]; other site 608538004996 conserved gate region; other site 608538004997 putative PBP binding loops; other site 608538004998 ABC-ATPase subunit interface; other site 608538004999 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 608538005000 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 608538005001 dimer interface [polypeptide binding]; other site 608538005002 conserved gate region; other site 608538005003 ABC-ATPase subunit interface; other site 608538005004 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 608538005005 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 608538005006 Walker A/P-loop; other site 608538005007 ATP binding site [chemical binding]; other site 608538005008 Q-loop/lid; other site 608538005009 ABC transporter signature motif; other site 608538005010 Walker B; other site 608538005011 D-loop; other site 608538005012 H-loop/switch region; other site 608538005013 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 608538005014 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 608538005015 Heme-binding domain of bacterial ethylbenzene dehydrogenase; Region: DOMON_EBDH; cd09623 608538005016 heme binding site [chemical binding]; other site 608538005017 beta subunit binding site [polypeptide binding]; other site 608538005018 DMSO reductase family type II enzyme, iron-sulfur subunit; Region: DMSO_red_II_bet; TIGR03478 608538005019 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 608538005020 DMSO reductase family type II enzyme, molybdopterin subunit; Region: DMSO_red_II_alp; TIGR03479 608538005021 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 608538005022 molybdopterin cofactor binding site; other site 608538005023 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 608538005024 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 608538005025 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; cd02775 608538005026 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 608538005027 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 608538005028 Walker A/P-loop; other site 608538005029 ATP binding site [chemical binding]; other site 608538005030 Q-loop/lid; other site 608538005031 ABC transporter signature motif; other site 608538005032 Walker B; other site 608538005033 D-loop; other site 608538005034 H-loop/switch region; other site 608538005035 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 608538005036 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 608538005037 FtsX-like permease family; Region: FtsX; pfam02687 608538005038 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 608538005039 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 608538005040 HlyD family secretion protein; Region: HlyD_3; pfam13437 608538005041 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 608538005042 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 608538005043 putative active site [active] 608538005044 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 608538005045 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 608538005046 glutaminase active site [active] 608538005047 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 608538005048 dimer interface [polypeptide binding]; other site 608538005049 active site 608538005050 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 608538005051 dimer interface [polypeptide binding]; other site 608538005052 active site 608538005053 pseudo gene. This gene contains 5'-teminal deletion. Contains high homology to Aquifex aeolicus aq507. 608538005054 pseudo gene. This gene contains frameshit mutations. Contains homology to nucleotidyltransferase substrate binding protein. 608538005055 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 608538005056 Protein export membrane protein; Region: SecD_SecF; cl14618 608538005057 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 608538005058 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 608538005059 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 608538005060 HlyD family secretion protein; Region: HlyD_3; pfam13437 608538005061 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 608538005062 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 608538005063 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 608538005064 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 608538005065 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 608538005066 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 608538005067 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 608538005068 hinge; other site 608538005069 active site 608538005070 Copper resistance protein D; Region: CopD; cl00563 608538005071 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 608538005072 pseudo gene. This gene contains frameshift mutations and 3'-terminal deletion. Contains homology to CRISPR-associated regulatory protein. 608538005073 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 608538005074 Flavoprotein; Region: Flavoprotein; pfam02441 608538005075 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 608538005076 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 608538005077 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 608538005078 active site 608538005079 motif I; other site 608538005080 motif II; other site 608538005081 Succinyl-CoA synthetase, beta subunit [Energy production and conversion]; Region: SucC; COG0045 608538005082 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 608538005083 CoA-ligase; Region: Ligase_CoA; pfam00549 608538005084 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 608538005085 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 608538005086 FeS/SAM binding site; other site 608538005087 ATP cone domain; Region: ATP-cone; pfam03477 608538005088 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 608538005089 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 608538005090 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 608538005091 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 608538005092 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 608538005093 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 608538005094 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 608538005095 putative active site [active] 608538005096 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 608538005097 putative active site [active] 608538005098 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 608538005099 The MopB_2 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_2; cd02763 608538005100 putative [Fe4-S4] binding site [ion binding]; other site 608538005101 putative molybdopterin cofactor binding site [chemical binding]; other site 608538005102 The MopB_CT_2 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is...; Region: MopB_CT_2; cd02783 608538005103 putative molybdopterin cofactor binding site; other site 608538005104 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 608538005105 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 608538005106 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 608538005107 IHF - DNA interface [nucleotide binding]; other site 608538005108 IHF dimer interface [polypeptide binding]; other site 608538005109 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 608538005110 OstA-like protein; Region: OstA; pfam03968 608538005111 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 608538005112 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 608538005113 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 608538005114 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 608538005115 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 608538005116 homotrimer interaction site [polypeptide binding]; other site 608538005117 zinc binding site [ion binding]; other site 608538005118 CDP-binding sites; other site 608538005119 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 608538005120 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 608538005121 active site 608538005122 nucleophile elbow; other site 608538005123 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 608538005124 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 608538005125 FMN-binding domain; Region: FMN_bind; pfam04205 608538005126 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 608538005127 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 608538005128 Methyltransferase domain; Region: Methyltransf_31; pfam13847 608538005129 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 608538005130 S-adenosylmethionine binding site [chemical binding]; other site 608538005131 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 608538005132 Predicted transcriptional regulators [Transcription]; Region: COG1733 608538005133 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 608538005134 dimerization interface [polypeptide binding]; other site 608538005135 putative DNA binding site [nucleotide binding]; other site 608538005136 putative Zn2+ binding site [ion binding]; other site 608538005137 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 608538005138 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 608538005139 ligand binding site [chemical binding]; other site 608538005140 flexible hinge region; other site 608538005141 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 608538005142 putative switch regulator; other site 608538005143 non-specific DNA interactions [nucleotide binding]; other site 608538005144 DNA binding site [nucleotide binding] 608538005145 sequence specific DNA binding site [nucleotide binding]; other site 608538005146 putative cAMP binding site [chemical binding]; other site 608538005147 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 608538005148 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 608538005149 mce related protein; Region: MCE; pfam02470 608538005150 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 608538005151 putative active site [active] 608538005152 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 608538005153 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 608538005154 ATP binding site [chemical binding]; other site 608538005155 active site 608538005156 substrate binding site [chemical binding]; other site 608538005157 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 608538005158 Probable transposase; Region: OrfB_IS605; pfam01385 608538005159 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 608538005160 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 608538005161 6-carboxyhexanoate--CoA ligase; Provisional; Region: PRK01322 608538005162 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 608538005163 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 608538005164 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 608538005165 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 608538005166 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 608538005167 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 608538005168 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 608538005169 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 608538005170 dimerization interface [polypeptide binding]; other site 608538005171 putative DNA binding site [nucleotide binding]; other site 608538005172 putative Zn2+ binding site [ion binding]; other site 608538005173 Low molecular weight phosphatase family; Region: LMWPc; cd00115 608538005174 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 608538005175 active site 608538005176 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 608538005177 Predicted permease; Region: DUF318; pfam03773 608538005178 arsenical pump membrane protein; Provisional; Region: PRK15445 608538005179 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 608538005180 transmembrane helices; other site 608538005181 DsrE/DsrF-like family; Region: DrsE; cl00672 608538005182 exopolyphosphatase; Region: exo_poly_only; TIGR03706 608538005183 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 608538005184 nucleotide binding site [chemical binding]; other site 608538005185 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 608538005186 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 608538005187 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 608538005188 NADH:ubiquinone oxidoreductase subunit 4 (chain M) [Energy production and conversion]; Region: NuoM; COG1008 608538005189 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 608538005190 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 608538005191 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 608538005192 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 608538005193 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 608538005194 NADH-ubiquinone/plastoquinone oxidoreductase chain 6; Region: Oxidored_q3; pfam00499 608538005195 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 608538005196 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 608538005197 4Fe-4S binding domain; Region: Fer4; pfam00037 608538005198 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 608538005199 oligomerisation interface [polypeptide binding]; other site 608538005200 mobile loop; other site 608538005201 roof hairpin; other site 608538005202 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 608538005203 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 608538005204 ring oligomerisation interface [polypeptide binding]; other site 608538005205 ATP/Mg binding site [chemical binding]; other site 608538005206 stacking interactions; other site 608538005207 hinge regions; other site 608538005208 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 608538005209 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 608538005210 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 608538005211 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 608538005212 catalytic residue [active] 608538005213 putative FPP diphosphate binding site; other site 608538005214 putative FPP binding hydrophobic cleft; other site 608538005215 dimer interface [polypeptide binding]; other site 608538005216 putative IPP diphosphate binding site; other site 608538005217 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 608538005218 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 608538005219 binding surface 608538005220 TPR motif; other site 608538005221 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 608538005222 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 608538005223 Cl- selectivity filter; other site 608538005224 Cl- binding residues [ion binding]; other site 608538005225 pore gating glutamate residue; other site 608538005226 dimer interface [polypeptide binding]; other site 608538005227 FOG: CBS domain [General function prediction only]; Region: COG0517 608538005228 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 608538005229 UDP-N-acetylmuramate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: MurB; COG0812 608538005230 FAD binding domain; Region: FAD_binding_4; pfam01565 608538005231 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 608538005232 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 608538005233 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 608538005234 ATP-grasp domain; Region: ATP-grasp_4; cl17255 608538005235 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 608538005236 cell division protein FtsA; Region: ftsA; TIGR01174 608538005237 Cell division protein FtsA; Region: FtsA; smart00842 608538005238 Cell division protein FtsA; Region: FtsA; pfam14450 608538005239 cell division protein FtsZ; Validated; Region: PRK09330 608538005240 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 608538005241 nucleotide binding site [chemical binding]; other site 608538005242 SulA interaction site; other site 608538005243 Outer membrane efflux protein; Region: OEP; pfam02321 608538005244 Outer membrane efflux protein; Region: OEP; pfam02321 608538005245 YtkA-like; Region: YtkA; pfam13115 608538005246 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 608538005247 DUF619 domain of various N-acetylglutamate Kinases and N-acetylglutamate Synthases; Region: DUF619-like; cl14605 608538005248 HlyD family secretion protein; Region: HlyD_3; pfam13437 608538005249 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 608538005250 NosL; Region: NosL; cl01769 608538005251 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 608538005252 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 608538005253 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 608538005254 motif II; other site 608538005255 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 608538005256 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 608538005257 HupF/HypC family; Region: HupF_HypC; pfam01455 608538005258 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 608538005259 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 608538005260 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 608538005261 HypX protein, N-terminal hydrolase domain; Region: FMT_core_HypX_N; cd08650 608538005262 putative active site [active] 608538005263 putative substrate binding site [chemical binding]; other site 608538005264 putative cosubstrate binding site; other site 608538005265 catalytic site [active] 608538005266 C-terminal subdomain of the Formyltransferase-like domain found in HypX-like proteins; Region: FMT_C_HypX; cd08701 608538005267 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 608538005268 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 608538005269 substrate binding site [chemical binding]; other site 608538005270 oxyanion hole (OAH) forming residues; other site 608538005271 trimer interface [polypeptide binding]; other site 608538005272 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 608538005273 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 608538005274 Dienelactone hydrolase family; Region: DLH; pfam01738 608538005275 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 608538005276 carbon starvation protein A; Provisional; Region: PRK15015 608538005277 Carbon starvation protein CstA; Region: CstA; pfam02554 608538005278 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 608538005279 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 608538005280 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 608538005281 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 608538005282 DNA polymerase III subunit delta'; Validated; Region: PRK08485 608538005283 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 608538005284 PLD-like domain; Region: PLDc_2; pfam13091 608538005285 putative active site [active] 608538005286 catalytic site [active] 608538005287 CAAX protease self-immunity; Region: Abi; pfam02517 608538005288 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 608538005289 Cell division protein FtsA; Region: FtsA; cl17206 608538005290 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 608538005291 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 608538005292 Walker A motif; other site 608538005293 ATP binding site [chemical binding]; other site 608538005294 Walker B motif; other site 608538005295 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 608538005296 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 608538005297 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 608538005298 dimerization interface [polypeptide binding]; other site 608538005299 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 608538005300 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 608538005301 G1 box; other site 608538005302 GTP/Mg2+ binding site [chemical binding]; other site 608538005303 G2 box; other site 608538005304 Switch I region; other site 608538005305 G3 box; other site 608538005306 Switch II region; other site 608538005307 G4 box; other site 608538005308 G5 box; other site 608538005309 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 608538005310 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 608538005311 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 608538005312 dimer interface [polypeptide binding]; other site 608538005313 active site 608538005314 glycine-pyridoxal phosphate binding site [chemical binding]; other site 608538005315 folate binding site [chemical binding]; other site 608538005316 argininosuccinate lyase; Provisional; Region: PRK00855 608538005317 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 608538005318 active sites [active] 608538005319 tetramer interface [polypeptide binding]; other site 608538005320 Peptidase family M54, also called archaemetzincins or archaelysins; Region: Peptidase_M54; cd11375 608538005321 active site 608538005322 Zn binding site [ion binding]; other site 608538005323 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 608538005324 Major Facilitator Superfamily; Region: MFS_1; pfam07690 608538005325 putative substrate translocation pore; other site 608538005326 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 608538005327 putative active site pocket [active] 608538005328 4-fold oligomerization interface [polypeptide binding]; other site 608538005329 metal binding residues [ion binding]; metal-binding site 608538005330 3-fold/trimer interface [polypeptide binding]; other site 608538005331 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 608538005332 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 608538005333 transcription termination factor Rho; Provisional; Region: rho; PRK09376 608538005334 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 608538005335 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 608538005336 RNA binding site [nucleotide binding]; other site 608538005337 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 608538005338 multimer interface [polypeptide binding]; other site 608538005339 Walker A motif; other site 608538005340 ATP binding site [chemical binding]; other site 608538005341 Walker B motif; other site 608538005342 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 608538005343 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 608538005344 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 608538005345 GTP/Mg2+ binding site [chemical binding]; other site 608538005346 trmE is a tRNA modification GTPase; Region: trmE; cd04164 608538005347 G1 box; other site 608538005348 G1 box; other site 608538005349 GTP/Mg2+ binding site [chemical binding]; other site 608538005350 Switch I region; other site 608538005351 Switch I region; other site 608538005352 G2 box; other site 608538005353 G2 box; other site 608538005354 Switch II region; other site 608538005355 G3 box; other site 608538005356 G3 box; other site 608538005357 Switch II region; other site 608538005358 G4 box; other site 608538005359 G5 box; other site 608538005360 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 608538005361 aminotransferase; Validated; Region: PRK08175 608538005362 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 608538005363 pyridoxal 5'-phosphate binding site [chemical binding]; other site 608538005364 homodimer interface [polypeptide binding]; other site 608538005365 catalytic residue [active] 608538005366 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 608538005367 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 608538005368 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 608538005369 active site 608538005370 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 608538005371 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 608538005372 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 608538005373 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 608538005374 Ligand binding site; other site 608538005375 oligomer interface; other site 608538005376 peroxiredoxin; Region: AhpC; TIGR03137 608538005377 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 608538005378 dimer interface [polypeptide binding]; other site 608538005379 decamer (pentamer of dimers) interface [polypeptide binding]; other site 608538005380 catalytic triad [active] 608538005381 peroxidatic and resolving cysteines [active] 608538005382 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 608538005383 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 608538005384 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 608538005385 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 608538005386 gamma-glutamyl kinase; Provisional; Region: PRK05429 608538005387 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 608538005388 nucleotide binding site [chemical binding]; other site 608538005389 homotetrameric interface [polypeptide binding]; other site 608538005390 putative phosphate binding site [ion binding]; other site 608538005391 putative allosteric binding site; other site 608538005392 PUA domain; Region: PUA; pfam01472 608538005393 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 608538005394 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 608538005395 putative NAD(P) binding site [chemical binding]; other site 608538005396 structural Zn binding site [ion binding]; other site 608538005397 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 608538005398 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 608538005399 motif 1; other site 608538005400 active site 608538005401 motif 2; other site 608538005402 motif 3; other site 608538005403 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 608538005404 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 608538005405 peptide chain release factor 1; Validated; Region: prfA; PRK00591 608538005406 This domain is found in peptide chain release factors; Region: PCRF; smart00937 608538005407 RF-1 domain; Region: RF-1; pfam00472 608538005408 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 608538005409 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 608538005410 RNA binding site [nucleotide binding]; other site 608538005411 active site 608538005412 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 608538005413 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 608538005414 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 608538005415 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 608538005416 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 608538005417 DNA binding residues [nucleotide binding] 608538005418 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 608538005419 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 608538005420 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 608538005421 protein binding site [polypeptide binding]; other site 608538005422 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 608538005423 protein binding site [polypeptide binding]; other site 608538005424 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 608538005425 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 608538005426 S-adenosylmethionine binding site [chemical binding]; other site 608538005427 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 608538005428 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 608538005429 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 608538005430 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 608538005431 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 608538005432 FeS/SAM binding site; other site 608538005433 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04135 608538005434 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 608538005435 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 608538005436 4Fe-4S binding domain; Region: Fer4; cl02805 608538005437 Probable transposase; Region: OrfB_IS605; pfam01385 608538005438 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 608538005439 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 608538005440 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 608538005441 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 608538005442 ligand binding site [chemical binding]; other site 608538005443 NAD binding site [chemical binding]; other site 608538005444 dimerization interface [polypeptide binding]; other site 608538005445 catalytic site [active] 608538005446 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 608538005447 putative L-serine binding site [chemical binding]; other site 608538005448 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 608538005449 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 608538005450 N-acetyl-D-glucosamine binding site [chemical binding]; other site 608538005451 catalytic residue [active] 608538005452 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 608538005453 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 608538005454 active site 608538005455 PHP Thumb interface [polypeptide binding]; other site 608538005456 metal binding site [ion binding]; metal-binding site 608538005457 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 608538005458 generic binding surface I; other site 608538005459 generic binding surface II; other site 608538005460 Domain of unknown function (DUF309); Region: DUF309; pfam03745 608538005461 FUN14 family; Region: FUN14; cl01015 608538005462 Biotin synthase-related enzyme [General function prediction only]; Region: COG2516 608538005463 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 608538005464 FeS/SAM binding site; other site 608538005465 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 608538005466 active site 608538005467 dimerization interface [polypeptide binding]; other site 608538005468 Uncharacterized homolog of biotin synthetase [Function unknown]; Region: COG1856 608538005469 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 608538005470 FeS/SAM binding site; other site 608538005471 glycine cleavage system protein H; Provisional; Region: PRK13380 608538005472 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 608538005473 lipoyl attachment site [posttranslational modification]; other site 608538005474 Predicted peroxiredoxins [General function prediction only]; Region: COG2044 608538005475 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 608538005476 glycine cleavage system protein H; Provisional; Region: PRK13380 608538005477 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 608538005478 lipoyl attachment site [posttranslational modification]; other site 608538005479 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 608538005480 Cysteine-rich domain; Region: CCG; pfam02754 608538005481 Cysteine-rich domain; Region: CCG; pfam02754 608538005482 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 608538005483 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 608538005484 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 608538005485 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 608538005486 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 608538005487 Cysteine-rich domain; Region: CCG; pfam02754 608538005488 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 608538005489 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 608538005490 Predicted peroxiredoxins [General function prediction only]; Region: COG2044 608538005491 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 608538005492 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 608538005493 CPxP motif; other site 608538005494 Uncharacterized conserved protein (DUF2203); Region: DUF2203; pfam09969 608538005495 Predicted membrane protein [Function unknown]; Region: COG1238 608538005496 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 608538005497 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 608538005498 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 608538005499 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 608538005500 CoA binding domain; Region: CoA_binding; smart00881 608538005501 CoA-ligase; Region: Ligase_CoA; pfam00549 608538005502 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 608538005503 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 608538005504 CoA-ligase; Region: Ligase_CoA; pfam00549 608538005505 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 608538005506 active site 608538005507 catalytic site [active] 608538005508 substrate binding site [chemical binding]; other site 608538005509 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 608538005510 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 608538005511 HSP70 interaction site [polypeptide binding]; other site 608538005512 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 608538005513 substrate binding site [polypeptide binding]; other site 608538005514 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 608538005515 Zn binding sites [ion binding]; other site 608538005516 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 608538005517 dimer interface [polypeptide binding]; other site 608538005518 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 608538005519 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 608538005520 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 608538005521 active site 608538005522 HIGH motif; other site 608538005523 KMSK motif region; other site 608538005524 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 608538005525 tRNA binding surface [nucleotide binding]; other site 608538005526 anticodon binding site; other site 608538005527 Sporulation related domain; Region: SPOR; pfam05036 608538005528 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 608538005529 binding surface 608538005530 TPR motif; other site 608538005531 TPR repeat; Region: TPR_11; pfam13414 608538005532 Sporulation related domain; Region: SPOR; pfam05036 608538005533 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 608538005534 Methyltransferase domain; Region: Methyltransf_26; pfam13659 608538005535 S-adenosylmethionine binding site [chemical binding]; other site 608538005536 Uncharacterized conserved protein [Function unknown]; Region: COG1656 608538005537 Protein of unknown function DUF82; Region: DUF82; pfam01927 608538005538 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 608538005539 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 608538005540 substrate binding site [chemical binding]; other site 608538005541 ligand binding site [chemical binding]; other site 608538005542 FtsH Extracellular; Region: FtsH_ext; pfam06480 608538005543 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 608538005544 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 608538005545 Walker A motif; other site 608538005546 ATP binding site [chemical binding]; other site 608538005547 Walker B motif; other site 608538005548 arginine finger; other site 608538005549 Peptidase family M41; Region: Peptidase_M41; pfam01434 608538005550 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 608538005551 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 608538005552 Ligand Binding Site [chemical binding]; other site 608538005553 SapC; Region: SapC; pfam07277 608538005554 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 608538005555 Glycoprotease family; Region: Peptidase_M22; pfam00814 608538005556 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 608538005557 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 608538005558 inhibitor-cofactor binding pocket; inhibition site 608538005559 pyridoxal 5'-phosphate binding site [chemical binding]; other site 608538005560 catalytic residue [active] 608538005561 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; cd00368 608538005562 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; cd00368 608538005563 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; cd02775 608538005564 molybdopterin cofactor binding site; other site 608538005565 Competence-damaged protein; Region: CinA; pfam02464 608538005566 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 608538005567 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 608538005568 active site 608538005569 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 608538005570 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 608538005571 Substrate binding site; other site 608538005572 Mg++ binding site; other site 608538005573 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 608538005574 active site 608538005575 substrate binding site [chemical binding]; other site 608538005576 CoA binding site [chemical binding]; other site 608538005577 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 608538005578 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 608538005579 Superfamily II helicase [General function prediction only]; Region: COG1204 608538005580 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 608538005581 ATP binding site [chemical binding]; other site 608538005582 putative Mg++ binding site [ion binding]; other site 608538005583 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 608538005584 nucleotide binding region [chemical binding]; other site 608538005585 ATP-binding site [chemical binding]; other site 608538005586 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 608538005587 glutamate racemase; Provisional; Region: PRK00865 608538005588 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 608538005589 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 608538005590 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 608538005591 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878