-- dump date 20140619_100546 -- class Genbank::misc_feature -- table misc_feature_note -- id note 190304000001 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 190304000002 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 190304000003 putative substrate translocation pore; other site 190304000004 Major Facilitator Superfamily; Region: MFS_1; pfam07690 190304000005 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 190304000006 EamA-like transporter family; Region: EamA; pfam00892 190304000007 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 190304000008 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 190304000009 trimer interface [polypeptide binding]; other site 190304000010 YadA-like C-terminal region; Region: YadA_anchor; pfam03895 190304000011 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 190304000012 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 190304000013 Walker A/P-loop; other site 190304000014 ATP binding site [chemical binding]; other site 190304000015 Q-loop/lid; other site 190304000016 ABC transporter signature motif; other site 190304000017 Walker B; other site 190304000018 D-loop; other site 190304000019 H-loop/switch region; other site 190304000020 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 190304000021 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 190304000022 Walker A/P-loop; other site 190304000023 ATP binding site [chemical binding]; other site 190304000024 Q-loop/lid; other site 190304000025 ABC transporter signature motif; other site 190304000026 Walker B; other site 190304000027 D-loop; other site 190304000028 H-loop/switch region; other site 190304000029 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 190304000030 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 190304000031 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 190304000032 dimer interface [polypeptide binding]; other site 190304000033 conserved gate region; other site 190304000034 putative PBP binding loops; other site 190304000035 ABC-ATPase subunit interface; other site 190304000036 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 190304000037 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 190304000038 dimer interface [polypeptide binding]; other site 190304000039 conserved gate region; other site 190304000040 putative PBP binding loops; other site 190304000041 ABC-ATPase subunit interface; other site 190304000042 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 190304000043 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 190304000044 substrate binding site [chemical binding]; other site 190304000045 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 190304000046 homopentamer interface [polypeptide binding]; other site 190304000047 active site 190304000048 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 190304000049 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 190304000050 catalytic motif [active] 190304000051 Zn binding site [ion binding]; other site 190304000052 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 190304000053 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 190304000054 Lumazine binding domain; Region: Lum_binding; pfam00677 190304000055 Lumazine binding domain; Region: Lum_binding; pfam00677 190304000056 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 190304000057 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 190304000058 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 190304000059 dimerization interface [polypeptide binding]; other site 190304000060 active site 190304000061 similar to hypothetical protein 190304000062 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 190304000063 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 190304000064 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 190304000065 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304000066 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304000067 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304000068 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304000069 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304000070 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304000071 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304000072 Resistance to inhibitors of cholinesterase homologue 3; Region: RIC3; pfam15361 190304000073 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 190304000074 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 190304000075 active site 190304000076 HIGH motif; other site 190304000077 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 190304000078 KMSKS motif; other site 190304000079 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 190304000080 tRNA binding surface [nucleotide binding]; other site 190304000081 RNA polymerase factor sigma-70; Validated; Region: PRK08295 190304000082 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 190304000083 DNA binding residues [nucleotide binding] 190304000084 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; cl17315 190304000085 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 190304000086 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 190304000087 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 190304000088 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 190304000089 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 190304000090 hinge; other site 190304000091 active site 190304000092 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 190304000093 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 190304000094 dimer interface [polypeptide binding]; other site 190304000095 conserved gate region; other site 190304000096 putative PBP binding loops; other site 190304000097 ABC-ATPase subunit interface; other site 190304000098 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 190304000099 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 190304000100 dimer interface [polypeptide binding]; other site 190304000101 conserved gate region; other site 190304000102 putative PBP binding loops; other site 190304000103 ABC-ATPase subunit interface; other site 190304000104 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 190304000105 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 190304000106 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 190304000107 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 190304000108 Walker A/P-loop; other site 190304000109 ATP binding site [chemical binding]; other site 190304000110 Q-loop/lid; other site 190304000111 ABC transporter signature motif; other site 190304000112 Walker B; other site 190304000113 D-loop; other site 190304000114 H-loop/switch region; other site 190304000115 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 190304000116 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 190304000117 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 190304000118 Walker A/P-loop; other site 190304000119 ATP binding site [chemical binding]; other site 190304000120 Q-loop/lid; other site 190304000121 ABC transporter signature motif; other site 190304000122 Walker B; other site 190304000123 D-loop; other site 190304000124 H-loop/switch region; other site 190304000125 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 190304000126 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 190304000127 flagellin; Reviewed; Region: PRK08411 190304000128 Autotransporter beta-domain; Region: Autotransporter; pfam03797 190304000129 Adhesion protein FadA; Region: FadA; pfam09403 190304000130 Integrase core domain; Region: rve; pfam00665 190304000131 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 190304000132 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 190304000133 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 190304000134 Electron transfer flavoprotein domain; Region: ETF; pfam01012 190304000135 Ligand Binding Site [chemical binding]; other site 190304000136 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 190304000137 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 190304000138 Ligand binding site [chemical binding]; other site 190304000139 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 190304000140 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 190304000141 active site 190304000142 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 190304000143 FAD binding domain; Region: FAD_binding_4; pfam01565 190304000144 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 190304000145 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 190304000146 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 190304000147 P loop; other site 190304000148 Nucleotide binding site [chemical binding]; other site 190304000149 DTAP/Switch II; other site 190304000150 Switch I; other site 190304000151 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 190304000152 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 190304000153 P loop; other site 190304000154 Nucleotide binding site [chemical binding]; other site 190304000155 DTAP/Switch II; other site 190304000156 Switch I; other site 190304000157 Uncharacterized conserved protein [Function unknown]; Region: COG1556 190304000158 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 190304000159 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 190304000160 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 190304000161 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 190304000162 Cysteine-rich domain; Region: CCG; pfam02754 190304000163 Cysteine-rich domain; Region: CCG; pfam02754 190304000164 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 190304000165 substrate binding pocket [chemical binding]; other site 190304000166 chain length determination region; other site 190304000167 substrate-Mg2+ binding site; other site 190304000168 catalytic residues [active] 190304000169 aspartate-rich region 1; other site 190304000170 active site lid residues [active] 190304000171 aspartate-rich region 2; other site 190304000172 1,4-Dihydroxy-2-naphthoate octaprenyltransferase; Region: PT_UbiA_UBIAD1; cd13962 190304000173 putative active site [active] 190304000174 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 190304000175 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 190304000176 S-adenosylmethionine binding site [chemical binding]; other site 190304000177 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 190304000178 putative oxidoreductase FixC; Provisional; Region: PRK10157 190304000179 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 190304000180 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 190304000181 elongation factor G; Reviewed; Region: PRK12740 190304000182 G1 box; other site 190304000183 putative GEF interaction site [polypeptide binding]; other site 190304000184 GTP/Mg2+ binding site [chemical binding]; other site 190304000185 Switch I region; other site 190304000186 G2 box; other site 190304000187 G3 box; other site 190304000188 Switch II region; other site 190304000189 G4 box; other site 190304000190 G5 box; other site 190304000191 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 190304000192 Elongation Factor G, domain II; Region: EFG_II; pfam14492 190304000193 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 190304000194 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 190304000195 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 190304000196 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 190304000197 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 190304000198 active site turn [active] 190304000199 phosphorylation site [posttranslational modification] 190304000200 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 190304000201 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 190304000202 Paraslipin or slipin-2 (SLP-2, a subgroup of the stomatin-like proteins (slipins) family; belonging to the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_paraslipin; cd08829 190304000203 core domain of the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_like; cl19107 190304000204 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 190304000205 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 190304000206 nucleotidyl binding site; other site 190304000207 metal binding site [ion binding]; metal-binding site 190304000208 RloB-like protein; Region: RloB; pfam13707 190304000209 Predicted ATPases [General function prediction only]; Region: COG1106 190304000210 AAA domain; Region: AAA_21; pfam13304 190304000211 AAA domain; Region: AAA_21; pfam13304 190304000212 Autotransporter beta-domain; Region: Autotransporter; pfam03797 190304000213 elongation factor Tu; Reviewed; Region: PRK00049 190304000214 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 190304000215 G1 box; other site 190304000216 GEF interaction site [polypeptide binding]; other site 190304000217 GTP/Mg2+ binding site [chemical binding]; other site 190304000218 Switch I region; other site 190304000219 G2 box; other site 190304000220 G3 box; other site 190304000221 Switch II region; other site 190304000222 G4 box; other site 190304000223 G5 box; other site 190304000224 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 190304000225 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 190304000226 Antibiotic Binding Site [chemical binding]; other site 190304000227 elongation factor G; Reviewed; Region: PRK00007 190304000228 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 190304000229 G1 box; other site 190304000230 putative GEF interaction site [polypeptide binding]; other site 190304000231 GTP/Mg2+ binding site [chemical binding]; other site 190304000232 Switch I region; other site 190304000233 G2 box; other site 190304000234 G3 box; other site 190304000235 Switch II region; other site 190304000236 G4 box; other site 190304000237 G5 box; other site 190304000238 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 190304000239 Elongation Factor G, domain II; Region: EFG_II; pfam14492 190304000240 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 190304000241 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 190304000242 30S ribosomal protein S7; Validated; Region: PRK05302 190304000243 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 190304000244 S17 interaction site [polypeptide binding]; other site 190304000245 S8 interaction site; other site 190304000246 16S rRNA interaction site [nucleotide binding]; other site 190304000247 streptomycin interaction site [chemical binding]; other site 190304000248 23S rRNA interaction site [nucleotide binding]; other site 190304000249 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 190304000250 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 190304000251 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 190304000252 TrkA-C domain; Region: TrkA_C; pfam02080 190304000253 TrkA-C domain; Region: TrkA_C; pfam02080 190304000254 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 190304000255 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 190304000256 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 190304000257 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroA; COG2876 190304000258 Smr domain; Region: Smr; pfam01713 190304000259 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 190304000260 GIY-YIG motif/motif A; other site 190304000261 putative active site [active] 190304000262 putative metal binding site [ion binding]; other site 190304000263 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 190304000264 DNA polymerase III subunit delta'; Validated; Region: PRK08485 190304000265 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 190304000266 rod shape-determining protein MreB; Provisional; Region: PRK13930 190304000267 MreB and similar proteins; Region: MreB_like; cd10225 190304000268 nucleotide binding site [chemical binding]; other site 190304000269 Mg binding site [ion binding]; other site 190304000270 putative protofilament interaction site [polypeptide binding]; other site 190304000271 RodZ interaction site [polypeptide binding]; other site 190304000272 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 190304000273 active site 190304000274 metal binding site [ion binding]; metal-binding site 190304000275 dimerization interface [polypeptide binding]; other site 190304000276 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 190304000277 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 190304000278 active site 190304000279 HIGH motif; other site 190304000280 KMSKS motif; other site 190304000281 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 190304000282 tRNA binding surface [nucleotide binding]; other site 190304000283 anticodon binding site; other site 190304000284 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 190304000285 substrate binding site; other site 190304000286 dimer interface; other site 190304000287 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 190304000288 MutS domain III; Region: MutS_III; pfam05192 190304000289 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 190304000290 Walker A/P-loop; other site 190304000291 ATP binding site [chemical binding]; other site 190304000292 Q-loop/lid; other site 190304000293 ABC transporter signature motif; other site 190304000294 Walker B; other site 190304000295 D-loop; other site 190304000296 H-loop/switch region; other site 190304000297 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 190304000298 Smr domain; Region: Smr; pfam01713 190304000299 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 190304000300 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 190304000301 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 190304000302 Predicted integral membrane protein [Function unknown]; Region: COG5505 190304000303 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 190304000304 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 190304000305 active site 190304000306 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 190304000307 Coenzyme A binding pocket [chemical binding]; other site 190304000308 Predicted transcriptional regulator [Transcription]; Region: COG2932 190304000309 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 190304000310 non-specific DNA binding site [nucleotide binding]; other site 190304000311 salt bridge; other site 190304000312 sequence-specific DNA binding site [nucleotide binding]; other site 190304000313 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 190304000314 Catalytic site [active] 190304000315 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 190304000316 ligand binding site [chemical binding]; other site 190304000317 dimerization interface [polypeptide binding]; other site 190304000318 Predicted NADH:ubiquinone oxidoreductase, subunit RnfB [Energy production and conversion]; Region: COG2878 190304000319 Putative Fe-S cluster; Region: FeS; cl17515 190304000320 Predicted NADH:ubiquinone oxidoreductase, subunit RnfA [Energy production and conversion]; Region: RnfA; COG4657 190304000321 electron transport complex RsxE subunit; Provisional; Region: PRK12405 190304000322 Predicted NADH:ubiquinone oxidoreductase, subunit RnfG [Energy production and conversion]; Region: RnfG; COG4659 190304000323 electron transport complex, RnfABCDGE type, D subunit; Region: rnfD; TIGR01946 190304000324 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 190304000325 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 190304000326 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 190304000327 SLBB domain; Region: SLBB; pfam10531 190304000328 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 190304000329 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 190304000330 putative active site [active] 190304000331 catalytic residue [active] 190304000332 Uncharacterized protein conserved in bacteria (DUF2247); Region: DUF2247; cl01763 190304000333 Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]; Region: TruA; COG0101 190304000334 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 190304000335 dimerization interface 3.5A [polypeptide binding]; other site 190304000336 active site 190304000337 DHH family; Region: DHH; pfam01368 190304000338 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 190304000339 DHHA1 domain; Region: DHHA1; pfam02272 190304000340 Uncharacterized conserved protein [Function unknown]; Region: COG1683 190304000341 Predicted kinase [General function prediction only]; Region: COG4639 190304000342 AAA domain; Region: AAA_33; pfam13671 190304000343 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 190304000344 active site 190304000345 metal binding site [ion binding]; metal-binding site 190304000346 Uncharacterized conserved protein [Function unknown]; Region: COG5324 190304000347 RNA ligase; Region: RNA_lig_T4_1; pfam09511 190304000348 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 190304000349 GDP-binding site [chemical binding]; other site 190304000350 ACT binding site; other site 190304000351 IMP binding site; other site 190304000352 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 190304000353 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 190304000354 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 190304000355 cytidylate kinase; Provisional; Region: cmk; PRK00023 190304000356 AAA domain; Region: AAA_17; cl19128 190304000357 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 190304000358 CMP-binding site; other site 190304000359 The sites determining sugar specificity; other site 190304000360 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 190304000361 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 190304000362 S-adenosylmethionine binding site [chemical binding]; other site 190304000363 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 190304000364 putative active site [active] 190304000365 metal binding site [ion binding]; metal-binding site 190304000366 homodimer binding site [polypeptide binding]; other site 190304000367 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 190304000368 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 190304000369 dimerization interface [polypeptide binding]; other site 190304000370 domain crossover interface; other site 190304000371 redox-dependent activation switch; other site 190304000372 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 190304000373 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 190304000374 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl19066 190304000375 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 190304000376 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 190304000377 FeS/SAM binding site; other site 190304000378 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 190304000379 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 190304000380 Walker A motif; other site 190304000381 ATP binding site [chemical binding]; other site 190304000382 Walker B motif; other site 190304000383 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 190304000384 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 190304000385 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 190304000386 Walker A motif; other site 190304000387 ATP binding site [chemical binding]; other site 190304000388 Walker B motif; other site 190304000389 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 190304000390 Predicted membrane protein [Function unknown]; Region: COG1971 190304000391 Domain of unknown function DUF; Region: DUF204; pfam02659 190304000392 Domain of unknown function DUF; Region: DUF204; pfam02659 190304000393 Transcription termination factor [Transcription]; Region: NusB; COG0781 190304000394 putative RNA binding site [nucleotide binding]; other site 190304000395 Small integral membrane protein (DUF2273); Region: DUF2273; pfam10031 190304000396 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 190304000397 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 190304000398 rRNA interaction site [nucleotide binding]; other site 190304000399 S8 interaction site; other site 190304000400 putative laminin-1 binding site; other site 190304000401 elongation factor Ts; Provisional; Region: tsf; PRK09377 190304000402 UBA/TS-N domain; Region: UBA; pfam00627 190304000403 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 190304000404 putative nucleotide binding site [chemical binding]; other site 190304000405 uridine monophosphate binding site [chemical binding]; other site 190304000406 homohexameric interface [polypeptide binding]; other site 190304000407 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 190304000408 hinge region; other site 190304000409 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 190304000410 SecY translocase; Region: SecY; pfam00344 190304000411 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 190304000412 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 190304000413 23S rRNA binding site [nucleotide binding]; other site 190304000414 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 190304000415 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 190304000416 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 190304000417 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 190304000418 23S rRNA interface [nucleotide binding]; other site 190304000419 L21e interface [polypeptide binding]; other site 190304000420 5S rRNA interface [nucleotide binding]; other site 190304000421 L27 interface [polypeptide binding]; other site 190304000422 L5 interface [polypeptide binding]; other site 190304000423 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 190304000424 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 190304000425 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 190304000426 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 190304000427 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 190304000428 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 190304000429 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 190304000430 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 190304000431 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 190304000432 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 190304000433 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 190304000434 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 190304000435 23S rRNA interface [nucleotide binding]; other site 190304000436 putative translocon interaction site; other site 190304000437 signal recognition particle (SRP54) interaction site; other site 190304000438 L23 interface [polypeptide binding]; other site 190304000439 trigger factor interaction site; other site 190304000440 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 190304000441 23S rRNA interface [nucleotide binding]; other site 190304000442 5S rRNA interface [nucleotide binding]; other site 190304000443 putative antibiotic binding site [chemical binding]; other site 190304000444 L25 interface [polypeptide binding]; other site 190304000445 L27 interface [polypeptide binding]; other site 190304000446 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 190304000447 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 190304000448 G-X-X-G motif; other site 190304000449 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 190304000450 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 190304000451 putative translocon binding site; other site 190304000452 protein-rRNA interface [nucleotide binding]; other site 190304000453 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 190304000454 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 190304000455 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 190304000456 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 190304000457 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 190304000458 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 190304000459 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 190304000460 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 190304000461 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 190304000462 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 190304000463 Walker A/P-loop; other site 190304000464 ATP binding site [chemical binding]; other site 190304000465 Q-loop/lid; other site 190304000466 ABC transporter signature motif; other site 190304000467 Walker B; other site 190304000468 D-loop; other site 190304000469 H-loop/switch region; other site 190304000470 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 190304000471 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 190304000472 Walker A/P-loop; other site 190304000473 ATP binding site [chemical binding]; other site 190304000474 Q-loop/lid; other site 190304000475 ABC transporter signature motif; other site 190304000476 Walker B; other site 190304000477 D-loop; other site 190304000478 H-loop/switch region; other site 190304000479 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 190304000480 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 190304000481 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 190304000482 dimer interface [polypeptide binding]; other site 190304000483 conserved gate region; other site 190304000484 putative PBP binding loops; other site 190304000485 ABC-ATPase subunit interface; other site 190304000486 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 190304000487 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 190304000488 dimer interface [polypeptide binding]; other site 190304000489 conserved gate region; other site 190304000490 putative PBP binding loops; other site 190304000491 ABC-ATPase subunit interface; other site 190304000492 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 190304000493 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 190304000494 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 190304000495 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 190304000496 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 190304000497 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 190304000498 Uncharacterized conserved protein [Function unknown]; Region: COG2461 190304000499 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 190304000500 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 190304000501 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 190304000502 prolyl-tRNA synthetase; Provisional; Region: PRK09194 190304000503 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 190304000504 dimer interface [polypeptide binding]; other site 190304000505 motif 1; other site 190304000506 active site 190304000507 motif 2; other site 190304000508 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 190304000509 putative deacylase active site [active] 190304000510 motif 3; other site 190304000511 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 190304000512 anticodon binding site; other site 190304000513 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 190304000514 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 190304000515 generic binding surface II; other site 190304000516 ssDNA binding site; other site 190304000517 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 190304000518 ATP binding site [chemical binding]; other site 190304000519 putative Mg++ binding site [ion binding]; other site 190304000520 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 190304000521 nucleotide binding region [chemical binding]; other site 190304000522 ATP-binding site [chemical binding]; other site 190304000523 hypothetical protein; Validated; Region: PRK00110 190304000524 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 190304000525 Divergent AAA domain; Region: AAA_4; pfam04326 190304000526 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 190304000527 Helix-turn-helix domain; Region: HTH_17; pfam12728 190304000528 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 190304000529 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 190304000530 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 190304000531 NAD binding site [chemical binding]; other site 190304000532 substrate binding site [chemical binding]; other site 190304000533 homodimer interface [polypeptide binding]; other site 190304000534 active site 190304000535 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 190304000536 active site 190304000537 metal-binding site 190304000538 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 190304000539 EamA-like transporter family; Region: EamA; pfam00892 190304000540 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 190304000541 putative DNA binding site [nucleotide binding]; other site 190304000542 putative Zn2+ binding site [ion binding]; other site 190304000543 Predicted sugar nucleotidyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1213 190304000544 active site 190304000545 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 190304000546 Phosphotransferase enzyme family; Region: APH; pfam01636 190304000547 active site 190304000548 ATP binding site [chemical binding]; other site 190304000549 substrate binding site [chemical binding]; other site 190304000550 dimer interface [polypeptide binding]; other site 190304000551 Protein of unknown function (DUF1574); Region: DUF1574; pfam07611 190304000552 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 190304000553 Transposase IS200 like; Region: Y1_Tnp; pfam01797 190304000554 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 190304000555 Transposase; Region: DEDD_Tnp_IS110; pfam01548 190304000556 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 190304000557 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 190304000558 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 190304000559 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_III; cd01996 190304000560 Ligand Binding Site [chemical binding]; other site 190304000561 Integrase core domain; Region: rve; pfam00665 190304000562 Integrase core domain; Region: rve_2; pfam13333 190304000563 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 190304000564 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 190304000565 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 190304000566 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 190304000567 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 190304000568 NeuB family; Region: NeuB; pfam03102 190304000569 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 190304000570 NeuB binding interface [polypeptide binding]; other site 190304000571 putative substrate binding site [chemical binding]; other site 190304000572 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 190304000573 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 190304000574 NADP binding site [chemical binding]; other site 190304000575 active site 190304000576 putative substrate binding site [chemical binding]; other site 190304000577 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 190304000578 ligand binding site; other site 190304000579 flagellin modification protein A; Provisional; Region: PRK09186 190304000580 classical (c) SDR, subgroup 8; Region: SDR_c8; cd08930 190304000581 putative NAD(P) binding site [chemical binding]; other site 190304000582 active site 190304000583 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 190304000584 active site 190304000585 catalytic tetrad [active] 190304000586 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 190304000587 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 190304000588 NAD(P) binding site [chemical binding]; other site 190304000589 homodimer interface [polypeptide binding]; other site 190304000590 substrate binding site [chemical binding]; other site 190304000591 active site 190304000592 EpsG family; Region: EpsG; pfam14897 190304000593 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 190304000594 GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis; Region: GT2_AmsE_like; cd04195 190304000595 LicD family; Region: LicD; pfam04991 190304000596 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 190304000597 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 190304000598 putative NAD(P) binding site [chemical binding]; other site 190304000599 active site 190304000600 putative substrate binding site [chemical binding]; other site 190304000601 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 190304000602 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 190304000603 CoA binding domain; Region: CoA_binding; cl17356 190304000604 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 190304000605 NAD(P) binding site [chemical binding]; other site 190304000606 homodimer interface [polypeptide binding]; other site 190304000607 substrate binding site [chemical binding]; other site 190304000608 active site 190304000609 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 190304000610 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 190304000611 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 190304000612 NADP binding site [chemical binding]; other site 190304000613 active site 190304000614 putative substrate binding site [chemical binding]; other site 190304000615 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 190304000616 AAA ATPase domain; Region: AAA_15; pfam13175 190304000617 AAA domain; Region: AAA_23; pfam13476 190304000618 AAA domain; Region: AAA_21; pfam13304 190304000619 Walker B; other site 190304000620 D-loop; other site 190304000621 H-loop/switch region; other site 190304000622 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 190304000623 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 190304000624 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 190304000625 NADP binding site [chemical binding]; other site 190304000626 homopentamer interface [polypeptide binding]; other site 190304000627 substrate binding site [chemical binding]; other site 190304000628 active site 190304000629 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 190304000630 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 190304000631 active site 190304000632 nucleophile elbow; other site 190304000633 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 190304000634 Surface antigen; Region: Bac_surface_Ag; pfam01103 190304000635 hypothetical protein; Provisional; Region: PRK10621 190304000636 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 190304000637 active site 190304000638 catalytic residues [active] 190304000639 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 190304000640 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 190304000641 RNase E interface [polypeptide binding]; other site 190304000642 trimer interface [polypeptide binding]; other site 190304000643 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 190304000644 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 190304000645 RNase E interface [polypeptide binding]; other site 190304000646 trimer interface [polypeptide binding]; other site 190304000647 active site 190304000648 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 190304000649 putative nucleic acid binding region [nucleotide binding]; other site 190304000650 G-X-X-G motif; other site 190304000651 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 190304000652 RNA binding site [nucleotide binding]; other site 190304000653 domain interface; other site 190304000654 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 190304000655 Predicted integral membrane protein [Function unknown]; Region: COG0762 190304000656 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 190304000657 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 190304000658 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 190304000659 S-adenosylmethionine binding site [chemical binding]; other site 190304000660 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 190304000661 AAA domain; Region: AAA_14; pfam13173 190304000662 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 190304000663 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 190304000664 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 190304000665 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 190304000666 nucleotide binding pocket [chemical binding]; other site 190304000667 K-X-D-G motif; other site 190304000668 catalytic site [active] 190304000669 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 190304000670 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 190304000671 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 190304000672 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 190304000673 Dimer interface [polypeptide binding]; other site 190304000674 BRCT sequence motif; other site 190304000675 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 190304000676 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 190304000677 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 190304000678 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 190304000679 SEC-C motif; Region: SEC-C; pfam02810 190304000680 HEPN domain; Region: HEPN; cl00824 190304000681 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 190304000682 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 190304000683 S-adenosylmethionine binding site [chemical binding]; other site 190304000684 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 190304000685 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 190304000686 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 190304000687 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 190304000688 TrkA-N domain; Region: TrkA_N; pfam02254 190304000689 TrkA-C domain; Region: TrkA_C; pfam02080 190304000690 Cation transport protein; Region: TrkH; cl17365 190304000691 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 190304000692 Cation transport protein; Region: TrkH; cl17365 190304000693 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 190304000694 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 190304000695 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 190304000696 Cl- selectivity filter; other site 190304000697 Cl- binding residues [ion binding]; other site 190304000698 pore gating glutamate residue; other site 190304000699 dimer interface [polypeptide binding]; other site 190304000700 H+/Cl- coupling transport residue; other site 190304000701 TrkA-C domain; Region: TrkA_C; pfam02080 190304000702 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 190304000703 putative substrate binding pocket [chemical binding]; other site 190304000704 AC domain interface; other site 190304000705 catalytic triad [active] 190304000706 AB domain interface; other site 190304000707 interchain disulfide; other site 190304000708 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 190304000709 homodimer interface [polypeptide binding]; other site 190304000710 substrate-cofactor binding pocket; other site 190304000711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304000712 catalytic residue [active] 190304000713 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 190304000714 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 190304000715 chorismate binding enzyme; Region: Chorismate_bind; cl10555 190304000716 Glutamine amidotransferase class-I; Region: GATase; pfam00117 190304000717 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 190304000718 glutamine binding [chemical binding]; other site 190304000719 catalytic triad [active] 190304000720 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 190304000721 V-type ATP synthase subunit D; Reviewed; Region: PRK00373 190304000722 V-type ATP synthase subunit B; Provisional; Region: PRK04196 190304000723 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 190304000724 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 190304000725 Walker A motif homologous position; other site 190304000726 Walker B motif; other site 190304000727 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 190304000728 V-type ATP synthase subunit F; Provisional; Region: PRK01395 190304000729 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 190304000730 V-type ATP synthase subunit C; Provisional; Region: PRK01198 190304000731 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 190304000732 V-type ATP synthase subunit E; Provisional; Region: PRK01194 190304000733 V-type ATP synthase subunit K; Validated; Region: PRK06558 190304000734 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 190304000735 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 190304000736 V-type ATP synthase subunit I; Validated; Region: PRK05771 190304000737 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 190304000738 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 190304000739 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 190304000740 DNA binding residues [nucleotide binding] 190304000741 drug binding residues [chemical binding]; other site 190304000742 dimer interface [polypeptide binding]; other site 190304000743 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 190304000744 EamA-like transporter family; Region: EamA; pfam00892 190304000745 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 190304000746 EamA-like transporter family; Region: EamA; pfam00892 190304000747 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 190304000748 homodimer interface [polypeptide binding]; other site 190304000749 substrate-cofactor binding pocket; other site 190304000750 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304000751 catalytic residue [active] 190304000752 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 190304000753 homodimer interface [polypeptide binding]; other site 190304000754 substrate-cofactor binding pocket; other site 190304000755 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304000756 catalytic residue [active] 190304000757 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 190304000758 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 190304000759 PYR/PP interface [polypeptide binding]; other site 190304000760 TPP binding site [chemical binding]; other site 190304000761 dimer interface [polypeptide binding]; other site 190304000762 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 190304000763 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 190304000764 thiamine phosphate binding site [chemical binding]; other site 190304000765 active site 190304000766 pyrophosphate binding site [ion binding]; other site 190304000767 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 190304000768 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 190304000769 FeS/SAM binding site; other site 190304000770 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 190304000771 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 190304000772 ThiS interaction site; other site 190304000773 putative active site [active] 190304000774 tetramer interface [polypeptide binding]; other site 190304000775 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 190304000776 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 190304000777 ATP binding site [chemical binding]; other site 190304000778 substrate interface [chemical binding]; other site 190304000779 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 190304000780 thiS-thiF/thiG interaction site; other site 190304000781 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 190304000782 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 190304000783 thiamine phosphate binding site [chemical binding]; other site 190304000784 active site 190304000785 pyrophosphate binding site [ion binding]; other site 190304000786 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 190304000787 dimer interface [polypeptide binding]; other site 190304000788 substrate binding site [chemical binding]; other site 190304000789 ATP binding site [chemical binding]; other site 190304000790 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3022 190304000791 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3758 190304000792 enolase; Provisional; Region: eno; PRK00077 190304000793 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 190304000794 dimer interface [polypeptide binding]; other site 190304000795 metal binding site [ion binding]; metal-binding site 190304000796 substrate binding pocket [chemical binding]; other site 190304000797 pyruvate kinase; Provisional; Region: PRK09206 190304000798 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 190304000799 domain interfaces; other site 190304000800 active site 190304000801 Domain of unknown function (DUF4261); Region: DUF4261; pfam14080 190304000802 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 190304000803 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Region: lytB_ispH; cd13944 190304000804 Fe-S cluster binding site [ion binding]; other site 190304000805 substrate binding site [chemical binding]; other site 190304000806 catalytic site [active] 190304000807 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 190304000808 RNA binding site [nucleotide binding]; other site 190304000809 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 190304000810 RNA binding site [nucleotide binding]; other site 190304000811 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 190304000812 RNA binding site [nucleotide binding]; other site 190304000813 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cd00164 190304000814 RNA binding site [nucleotide binding]; other site 190304000815 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 190304000816 RNA binding site [nucleotide binding]; other site 190304000817 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 190304000818 dimerization domain swap beta strand [polypeptide binding]; other site 190304000819 regulatory protein interface [polypeptide binding]; other site 190304000820 active site 190304000821 regulatory phosphorylation site [posttranslational modification]; other site 190304000822 Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]; Region: EutJ; COG4820 190304000823 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 190304000824 nucleotide binding site [chemical binding]; other site 190304000825 Cell division protein FtsA; Region: FtsA; cl17206 190304000826 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 190304000827 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 190304000828 putative ribose interaction site [chemical binding]; other site 190304000829 putative ADP binding site [chemical binding]; other site 190304000830 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 190304000831 TPR motif; other site 190304000832 TPR repeat; Region: TPR_11; pfam13414 190304000833 binding surface 190304000834 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 190304000835 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 190304000836 binding surface 190304000837 TPR motif; other site 190304000838 Tetratricopeptide repeat; Region: TPR_1; pfam00515 190304000839 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 190304000840 binding surface 190304000841 TPR motif; other site 190304000842 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 190304000843 binding surface 190304000844 TPR motif; other site 190304000845 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 190304000846 homotrimer interaction site [polypeptide binding]; other site 190304000847 zinc binding site [ion binding]; other site 190304000848 CDP-binding sites; other site 190304000849 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 190304000850 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 190304000851 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 190304000852 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 190304000853 homodimer interface [polypeptide binding]; other site 190304000854 Walker A motif; other site 190304000855 ATP binding site [chemical binding]; other site 190304000856 hydroxycobalamin binding site [chemical binding]; other site 190304000857 Walker B motif; other site 190304000858 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 190304000859 putative active site [active] 190304000860 nucleotide binding site [chemical binding]; other site 190304000861 nudix motif; other site 190304000862 putative metal binding site [ion binding]; other site 190304000863 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 190304000864 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 190304000865 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 190304000866 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 190304000867 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 190304000868 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 190304000869 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 190304000870 dimerization domain swap beta strand [polypeptide binding]; other site 190304000871 regulatory protein interface [polypeptide binding]; other site 190304000872 active site 190304000873 regulatory phosphorylation site [posttranslational modification]; other site 190304000874 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 190304000875 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 190304000876 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 190304000877 Walker A/P-loop; other site 190304000878 ATP binding site [chemical binding]; other site 190304000879 Q-loop/lid; other site 190304000880 ABC transporter signature motif; other site 190304000881 Walker B; other site 190304000882 D-loop; other site 190304000883 H-loop/switch region; other site 190304000884 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 190304000885 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 190304000886 dimer interface [polypeptide binding]; other site 190304000887 conserved gate region; other site 190304000888 putative PBP binding loops; other site 190304000889 ABC-ATPase subunit interface; other site 190304000890 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 190304000891 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 190304000892 dimer interface [polypeptide binding]; other site 190304000893 conserved gate region; other site 190304000894 putative PBP binding loops; other site 190304000895 ABC-ATPase subunit interface; other site 190304000896 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 190304000897 active site 190304000898 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 190304000899 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 190304000900 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 190304000901 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 190304000902 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 190304000903 metal binding site [ion binding]; metal-binding site 190304000904 dimer interface [polypeptide binding]; other site 190304000905 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 190304000906 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 190304000907 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 190304000908 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 190304000909 Periplasmic solute binding protein family; Region: TroA; pfam01297 190304000910 intersubunit interface [polypeptide binding]; other site 190304000911 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 190304000912 ABC-ATPase subunit interface; other site 190304000913 dimer interface [polypeptide binding]; other site 190304000914 putative PBP binding regions; other site 190304000915 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 190304000916 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 190304000917 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 190304000918 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 190304000919 intersubunit interface [polypeptide binding]; other site 190304000920 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 190304000921 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 190304000922 intersubunit interface [polypeptide binding]; other site 190304000923 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 190304000924 Domain of unknown function (DUF4304); Region: DUF4304; pfam14137 190304000925 haemagglutination activity domain; Region: Haemagg_act; pfam05860 190304000926 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 190304000927 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 190304000928 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 190304000929 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 190304000930 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 190304000931 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 190304000932 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 190304000933 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 190304000934 Walker A/P-loop; other site 190304000935 ATP binding site [chemical binding]; other site 190304000936 Q-loop/lid; other site 190304000937 ABC transporter signature motif; other site 190304000938 Walker B; other site 190304000939 D-loop; other site 190304000940 H-loop/switch region; other site 190304000941 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 190304000942 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 190304000943 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 190304000944 Walker A/P-loop; other site 190304000945 ATP binding site [chemical binding]; other site 190304000946 Q-loop/lid; other site 190304000947 ABC transporter signature motif; other site 190304000948 Walker B; other site 190304000949 D-loop; other site 190304000950 H-loop/switch region; other site 190304000951 Flavodoxin domain; Region: Flavodoxin_3; pfam12641 190304000952 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 190304000953 Bacterial regulatory proteins, tetR family; Region: TetR_N; cl19382 190304000954 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 190304000955 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 190304000956 DHHA2 domain; Region: DHHA2; pfam02833 190304000957 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 190304000958 putative protease; Provisional; Region: PRK15452 190304000959 replicative DNA helicase; Region: DnaB; TIGR00665 190304000960 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 190304000961 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 190304000962 Walker A motif; other site 190304000963 ATP binding site [chemical binding]; other site 190304000964 Walker B motif; other site 190304000965 DNA binding loops [nucleotide binding] 190304000966 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 190304000967 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 190304000968 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 190304000969 DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]; Region: DnaX; COG2812 190304000970 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 190304000971 Walker A motif; other site 190304000972 ATP binding site [chemical binding]; other site 190304000973 Walker B motif; other site 190304000974 arginine finger; other site 190304000975 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 190304000976 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; cl19078 190304000977 active site 190304000978 phosphorylation site [posttranslational modification] 190304000979 intermolecular recognition site; other site 190304000980 dimerization interface [polypeptide binding]; other site 190304000981 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 190304000982 Walker A motif; other site 190304000983 ATP binding site [chemical binding]; other site 190304000984 Walker B motif; other site 190304000985 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 190304000986 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 190304000987 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 190304000988 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 190304000989 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 190304000990 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 190304000991 Tetratricopeptide repeat; Region: TPR_16; pfam13432 190304000992 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 190304000993 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 190304000994 TPR motif; other site 190304000995 binding surface 190304000996 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 190304000997 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 190304000998 binding surface 190304000999 TPR motif; other site 190304001000 Uncharacterized conserved protein [Function unknown]; Region: COG1852 190304001001 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 190304001002 amphipathic channel; other site 190304001003 Asn-Pro-Ala signature motifs; other site 190304001004 glycerol kinase; Provisional; Region: glpK; PRK00047 190304001005 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 190304001006 N- and C-terminal domain interface [polypeptide binding]; other site 190304001007 active site 190304001008 MgATP binding site [chemical binding]; other site 190304001009 catalytic site [active] 190304001010 metal binding site [ion binding]; metal-binding site 190304001011 glycerol binding site [chemical binding]; other site 190304001012 homotetramer interface [polypeptide binding]; other site 190304001013 homodimer interface [polypeptide binding]; other site 190304001014 FBP binding site [chemical binding]; other site 190304001015 protein IIAGlc interface [polypeptide binding]; other site 190304001016 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 190304001017 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 190304001018 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3412 190304001019 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 190304001020 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 190304001021 classical (c) SDRs; Region: SDR_c; cd05233 190304001022 NAD(P) binding site [chemical binding]; other site 190304001023 active site 190304001024 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 190304001025 active site 190304001026 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 190304001027 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 190304001028 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 190304001029 NAD(P) binding site [chemical binding]; other site 190304001030 active site 190304001031 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 190304001032 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 190304001033 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 190304001034 acyl-activating enzyme (AAE) consensus motif; other site 190304001035 active site 190304001036 AMP binding site [chemical binding]; other site 190304001037 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 190304001038 active site 190304001039 CoA binding site [chemical binding]; other site 190304001040 AMP binding site [chemical binding]; other site 190304001041 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 190304001042 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 190304001043 dimer interface [polypeptide binding]; other site 190304001044 active site 190304001045 CoA binding pocket [chemical binding]; other site 190304001046 ribonuclease PH; Reviewed; Region: rph; PRK00173 190304001047 Ribonuclease PH; Region: RNase_PH_bact; cd11362 190304001048 hexamer interface [polypeptide binding]; other site 190304001049 active site 190304001050 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 190304001051 active site 190304001052 dimerization interface [polypeptide binding]; other site 190304001053 B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'...; Region: Glm_B12_BD; cd02072 190304001054 B12 binding site [chemical binding]; other site 190304001055 heterodimer interface [polypeptide binding]; other site 190304001056 cobalt ligand [ion binding]; other site 190304001057 MutL protein; Region: MutL; pfam13941 190304001058 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cd00245 190304001059 substrate binding site [chemical binding]; other site 190304001060 B12 cofactor binding site [chemical binding]; other site 190304001061 heterodimer (sigma-epsilon) interface [polypeptide binding]; other site 190304001062 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 190304001063 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 190304001064 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 190304001065 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 190304001066 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 190304001067 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 190304001068 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 190304001069 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 190304001070 Lysine efflux permease [General function prediction only]; Region: COG1279 190304001071 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 190304001072 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; cl18945 190304001073 B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase...; Region: B12-binding; cd02067 190304001074 B12 binding site [chemical binding]; other site 190304001075 cobalt ligand [ion binding]; other site 190304001076 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 190304001077 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 190304001078 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 190304001079 ATP-binding cassette domain of MutS homologs; Region: ABC_MutS_homologs; cd03243 190304001080 Walker A/P-loop; other site 190304001081 ATP binding site [chemical binding]; other site 190304001082 Q-loop/lid; other site 190304001083 ABC transporter signature motif; other site 190304001084 Walker B; other site 190304001085 D-loop; other site 190304001086 H-loop/switch region; other site 190304001087 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 190304001088 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 190304001089 FeS/SAM binding site; other site 190304001090 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 190304001091 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 190304001092 NAD(P) binding site [chemical binding]; other site 190304001093 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 190304001094 Thioesterase superfamily; Region: 4HBT; pfam03061 190304001095 active site 1 [active] 190304001096 active site 2 [active] 190304001097 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 190304001098 nucleotide binding site/active site [active] 190304001099 HIT family signature motif; other site 190304001100 catalytic residue [active] 190304001101 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 190304001102 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 190304001103 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl19519 190304001104 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 190304001105 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 190304001106 conserved cys residue [active] 190304001107 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 190304001108 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 190304001109 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 190304001110 FMN binding site [chemical binding]; other site 190304001111 dimer interface [polypeptide binding]; other site 190304001112 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 190304001113 active site 190304001114 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 190304001115 Transposase; Region: DEDD_Tnp_IS110; pfam01548 190304001116 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 190304001117 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 190304001118 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 190304001119 Helix-turn-helix domain; Region: HTH_28; pfam13518 190304001120 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 190304001121 Integrase core domain; Region: rve_3; cl15866 190304001122 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 190304001123 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 190304001124 active site 190304001125 catalytic site [active] 190304001126 metal binding site [ion binding]; metal-binding site 190304001127 dimer interface [polypeptide binding]; other site 190304001128 Autotransporter beta-domain; Region: Autotransporter; pfam03797 190304001129 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 190304001130 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 190304001131 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 190304001132 TM-ABC transporter signature motif; other site 190304001133 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 190304001134 TM-ABC transporter signature motif; other site 190304001135 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 190304001136 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 190304001137 Walker A/P-loop; other site 190304001138 ATP binding site [chemical binding]; other site 190304001139 Q-loop/lid; other site 190304001140 ABC transporter signature motif; other site 190304001141 Walker B; other site 190304001142 D-loop; other site 190304001143 H-loop/switch region; other site 190304001144 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 190304001145 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 190304001146 dimerization interface [polypeptide binding]; other site 190304001147 ligand binding site [chemical binding]; other site 190304001148 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 190304001149 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 190304001150 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 190304001151 ligand binding site [chemical binding]; other site 190304001152 flexible hinge region; other site 190304001153 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 190304001154 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 190304001155 catalytic motif [active] 190304001156 Zn binding site [ion binding]; other site 190304001157 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 190304001158 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 190304001159 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 190304001160 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 190304001161 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 190304001162 active site residue [active] 190304001163 SirA_RHOD_Pry_redox. SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that...; Region: SirA_RHOD_Pry_redox; cd03420 190304001164 CPxP motif; other site 190304001165 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 190304001166 Predicted transcriptional regulators [Transcription]; Region: COG1733 190304001167 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 190304001168 Domain of unknown function (DUF4200); Region: DUF4200; pfam13863 190304001169 Autotransporter beta-domain; Region: Autotransporter; pfam03797 190304001170 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 190304001171 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 190304001172 interface (dimer of trimers) [polypeptide binding]; other site 190304001173 Substrate-binding/catalytic site; other site 190304001174 Zn-binding sites [ion binding]; other site 190304001175 Uncharacterized conserved protein [Function unknown]; Region: COG1739 190304001176 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 190304001177 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 190304001178 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 190304001179 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 190304001180 active site 190304001181 catalytic site [active] 190304001182 metal binding site [ion binding]; metal-binding site 190304001183 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 190304001184 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 190304001185 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 190304001186 trimer interface [polypeptide binding]; other site 190304001187 active site 190304001188 UDP-GlcNAc binding site [chemical binding]; other site 190304001189 lipid binding site [chemical binding]; lipid-binding site 190304001190 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 190304001191 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 190304001192 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 190304001193 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 190304001194 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 190304001195 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 190304001196 Surface antigen; Region: Bac_surface_Ag; pfam01103 190304001197 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 190304001198 Family of unknown function (DUF490); Region: DUF490; pfam04357 190304001199 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 190304001200 phosphodiesterase; Provisional; Region: PRK12704 190304001201 Orbivirus outer capsid protein VP5; Region: Orbi_VP5; pfam00901 190304001202 KH domain; Region: KH_1; pfam00013 190304001203 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 190304001204 Zn2+ binding site [ion binding]; other site 190304001205 Mg2+ binding site [ion binding]; other site 190304001206 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 190304001207 anti sigma factor interaction site; other site 190304001208 regulatory phosphorylation site [posttranslational modification]; other site 190304001209 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 190304001210 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 190304001211 ATP binding site [chemical binding]; other site 190304001212 Mg2+ binding site [ion binding]; other site 190304001213 G-X-G motif; other site 190304001214 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 190304001215 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 190304001216 GTPase CgtA; Reviewed; Region: obgE; PRK12297 190304001217 GTP1/OBG; Region: GTP1_OBG; pfam01018 190304001218 Obg GTPase; Region: Obg; cd01898 190304001219 G1 box; other site 190304001220 GTP/Mg2+ binding site [chemical binding]; other site 190304001221 Switch I region; other site 190304001222 G2 box; other site 190304001223 G3 box; other site 190304001224 Switch II region; other site 190304001225 G4 box; other site 190304001226 G5 box; other site 190304001227 Obg family GTPase CgtA, C-terminal extension; Region: Obg_CgtA_exten; TIGR03595 190304001228 Methyltransferase domain; Region: Methyltransf_31; pfam13847 190304001229 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 190304001230 S-adenosylmethionine binding site [chemical binding]; other site 190304001231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 190304001232 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 190304001233 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 190304001234 Ligand Binding Site [chemical binding]; other site 190304001235 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 190304001236 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 190304001237 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 190304001238 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 190304001239 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 190304001240 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 190304001241 Citrate transporter; Region: CitMHS; pfam03600 190304001242 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 190304001243 transmembrane helices; other site 190304001244 Citrate transporter; Region: CitMHS; pfam03600 190304001245 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 190304001246 transmembrane helices; other site 190304001247 Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: PtsN; COG1762 190304001248 active site 190304001249 phosphorylation site [posttranslational modification] 190304001250 FOG: CBS domain [General function prediction only]; Region: COG0517 190304001251 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 190304001252 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 190304001253 DAK2 domain; Region: Dak2; pfam02734 190304001254 Dihydroxyacetone kinase family; Region: Dak1_2; pfam13684 190304001255 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 190304001256 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 190304001257 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 190304001258 non-specific DNA binding site [nucleotide binding]; other site 190304001259 salt bridge; other site 190304001260 sequence-specific DNA binding site [nucleotide binding]; other site 190304001261 Cupin domain; Region: Cupin_2; pfam07883 190304001262 competence damage-inducible protein A; Provisional; Region: PRK00549 190304001263 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 190304001264 putative MPT binding site; other site 190304001265 Mitovirus RNA-dependent RNA polymerase; Region: Mitovir_RNA_pol; pfam05919 190304001266 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 190304001267 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 190304001268 tetramer interfaces [polypeptide binding]; other site 190304001269 binuclear metal-binding site [ion binding]; other site 190304001270 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 190304001271 Collagenase; Region: DUF3656; pfam12392 190304001272 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 190304001273 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 190304001274 CoA-binding site [chemical binding]; other site 190304001275 ATP-binding [chemical binding]; other site 190304001276 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 190304001277 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 190304001278 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 190304001279 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 190304001280 Clp amino terminal domain; Region: Clp_N; pfam02861 190304001281 Clp amino terminal domain; Region: Clp_N; pfam02861 190304001282 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 190304001283 Walker A motif; other site 190304001284 ATP binding site [chemical binding]; other site 190304001285 Walker B motif; other site 190304001286 arginine finger; other site 190304001287 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 190304001288 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 190304001289 Walker A motif; other site 190304001290 ATP binding site [chemical binding]; other site 190304001291 Walker B motif; other site 190304001292 arginine finger; other site 190304001293 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 190304001294 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 190304001295 YheO-like PAS domain; Region: PAS_6; pfam08348 190304001296 HTH domain; Region: HTH_22; pfam13309 190304001297 Tryptophanase [Amino acid transport and metabolism]; Region: TnaA; COG3033 190304001298 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 190304001299 substrate binding site [chemical binding]; other site 190304001300 tetramer interface [polypeptide binding]; other site 190304001301 catalytic residue [active] 190304001302 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 190304001303 Na2 binding site [ion binding]; other site 190304001304 putative substrate binding site 1 [chemical binding]; other site 190304001305 Na binding site 1 [ion binding]; other site 190304001306 putative substrate binding site 2 [chemical binding]; other site 190304001307 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Sulfolobus solfataricus (Ss) and its homologs from archaea and bacteria; Region: NTP-PPase_SsMazG; cd11535 190304001308 metal binding site [ion binding]; metal-binding site 190304001309 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 190304001310 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 190304001311 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 190304001312 active site 190304001313 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 190304001314 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 190304001315 catalytic triad [active] 190304001316 putative active site [active] 190304001317 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 190304001318 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 190304001319 Autotransporter beta-domain; Region: Autotransporter; pfam03797 190304001320 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 190304001321 putative ADP-ribose binding site [chemical binding]; other site 190304001322 putative active site [active] 190304001323 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 190304001324 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 190304001325 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 190304001326 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 190304001327 catalytic site [active] 190304001328 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 190304001329 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 190304001330 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 190304001331 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 190304001332 binding surface 190304001333 TPR motif; other site 190304001334 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 190304001335 binding surface 190304001336 TPR motif; other site 190304001337 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 190304001338 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 190304001339 binding surface 190304001340 TPR motif; other site 190304001341 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 190304001342 binding surface 190304001343 TPR motif; other site 190304001344 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 190304001345 TPR motif; other site 190304001346 TPR repeat; Region: TPR_11; pfam13414 190304001347 binding surface 190304001348 Tetratricopeptide repeat; Region: TPR_12; pfam13424 190304001349 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 190304001350 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 190304001351 binding surface 190304001352 TPR motif; other site 190304001353 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 190304001354 binding surface 190304001355 TPR motif; other site 190304001356 Tetratricopeptide repeat; Region: TPR_19; pfam14559 190304001357 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 190304001358 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 190304001359 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 190304001360 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 190304001361 Walker A/P-loop; other site 190304001362 ATP binding site [chemical binding]; other site 190304001363 Q-loop/lid; other site 190304001364 ABC transporter signature motif; other site 190304001365 Walker B; other site 190304001366 D-loop; other site 190304001367 H-loop/switch region; other site 190304001368 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 190304001369 ABC-ATPase subunit interface; other site 190304001370 dimer interface [polypeptide binding]; other site 190304001371 putative PBP binding regions; other site 190304001372 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 190304001373 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 190304001374 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 190304001375 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 190304001376 N-terminal plug; other site 190304001377 ligand-binding site [chemical binding]; other site 190304001378 Cupin domain; Region: Cupin_2; cl17218 190304001379 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 190304001380 homotrimer interaction site [polypeptide binding]; other site 190304001381 putative active site [active] 190304001382 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 190304001383 PLD-like domain; Region: PLDc_2; pfam13091 190304001384 putative homodimer interface [polypeptide binding]; other site 190304001385 putative active site [active] 190304001386 catalytic site [active] 190304001387 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 190304001388 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 190304001389 ATP binding site [chemical binding]; other site 190304001390 putative Mg++ binding site [ion binding]; other site 190304001391 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 190304001392 nucleotide binding region [chemical binding]; other site 190304001393 ATP-binding site [chemical binding]; other site 190304001394 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 190304001395 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 190304001396 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 190304001397 ATP binding site [chemical binding]; other site 190304001398 Mg++ binding site [ion binding]; other site 190304001399 motif III; other site 190304001400 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 190304001401 nucleotide binding region [chemical binding]; other site 190304001402 ATP-binding site [chemical binding]; other site 190304001403 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 190304001404 RNA binding site [nucleotide binding]; other site 190304001405 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 190304001406 dimerization interface [polypeptide binding]; other site 190304001407 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 190304001408 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 190304001409 Ligand Binding Site [chemical binding]; other site 190304001410 TilS substrate C-terminal domain; Region: TilS_C; smart00977 190304001411 FtsH Extracellular; Region: FtsH_ext; pfam06480 190304001412 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 190304001413 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 190304001414 Walker A motif; other site 190304001415 ATP binding site [chemical binding]; other site 190304001416 Walker B motif; other site 190304001417 arginine finger; other site 190304001418 Peptidase family M41; Region: Peptidase_M41; pfam01434 190304001419 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 190304001420 16S/18S rRNA binding site [nucleotide binding]; other site 190304001421 S13e-L30e interaction site [polypeptide binding]; other site 190304001422 25S rRNA binding site [nucleotide binding]; other site 190304001423 Predicted multitransmembrane protein [Function unknown]; Region: COG5438 190304001424 peroxiredoxin; Region: AhpC; TIGR03137 190304001425 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 190304001426 dimer interface [polypeptide binding]; other site 190304001427 decamer (pentamer of dimers) interface [polypeptide binding]; other site 190304001428 catalytic triad [active] 190304001429 peroxidatic and resolving cysteines [active] 190304001430 putative alkyl hydroperoxide reductase F subunit; Region: AhpF_homolog; TIGR03143 190304001431 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 190304001432 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 190304001433 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 190304001434 catalytic residue [active] 190304001435 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 190304001436 catalytic residues [active] 190304001437 Inner membrane protein involved in colicin E2 resistance [Defense mechanisms]; Region: CreD; COG4452 190304001438 Domain of unknown function (DUF4424); Region: DUF4424; pfam14415 190304001439 YARHG domain; Region: YARHG; pfam13308 190304001440 Transcriptional regulators [Transcription]; Region: GntR; COG1802 190304001441 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 190304001442 DNA-binding site [nucleotide binding]; DNA binding site 190304001443 FCD domain; Region: FCD; pfam07729 190304001444 Tryptophanase [Amino acid transport and metabolism]; Region: TnaA; COG3033 190304001445 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 190304001446 substrate binding site [chemical binding]; other site 190304001447 tetramer interface [polypeptide binding]; other site 190304001448 catalytic residue [active] 190304001449 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 190304001450 Na2 binding site [ion binding]; other site 190304001451 putative substrate binding site 1 [chemical binding]; other site 190304001452 Na binding site 1 [ion binding]; other site 190304001453 putative substrate binding site 2 [chemical binding]; other site 190304001454 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 190304001455 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 190304001456 Substrate binding site; other site 190304001457 Mg++ binding site; other site 190304001458 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 190304001459 active site 190304001460 substrate binding site [chemical binding]; other site 190304001461 CoA binding site [chemical binding]; other site 190304001462 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 190304001463 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 190304001464 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 190304001465 active site 190304001466 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 190304001467 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 190304001468 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 190304001469 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 190304001470 non-specific DNA binding site [nucleotide binding]; other site 190304001471 salt bridge; other site 190304001472 sequence-specific DNA binding site [nucleotide binding]; other site 190304001473 Uncharacterized membrane-anchored protein [Function unknown]; Region: COG4929 190304001474 Predicted membrane protein [Function unknown]; Region: COG4984 190304001475 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 190304001476 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 190304001477 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 190304001478 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 190304001479 Walker A/P-loop; other site 190304001480 ATP binding site [chemical binding]; other site 190304001481 Q-loop/lid; other site 190304001482 ABC transporter signature motif; other site 190304001483 Walker B; other site 190304001484 D-loop; other site 190304001485 H-loop/switch region; other site 190304001486 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 190304001487 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 190304001488 Walker A/P-loop; other site 190304001489 ATP binding site [chemical binding]; other site 190304001490 Q-loop/lid; other site 190304001491 ABC transporter signature motif; other site 190304001492 Walker B; other site 190304001493 D-loop; other site 190304001494 H-loop/switch region; other site 190304001495 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 190304001496 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 190304001497 catalytic residues [active] 190304001498 dimer interface [polypeptide binding]; other site 190304001499 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 190304001500 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 190304001501 Walker A/P-loop; other site 190304001502 ATP binding site [chemical binding]; other site 190304001503 Q-loop/lid; other site 190304001504 ABC transporter signature motif; other site 190304001505 Walker B; other site 190304001506 D-loop; other site 190304001507 H-loop/switch region; other site 190304001508 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 190304001509 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 190304001510 dimer interface [polypeptide binding]; other site 190304001511 conserved gate region; other site 190304001512 putative PBP binding loops; other site 190304001513 ABC-ATPase subunit interface; other site 190304001514 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 190304001515 Transcriptional regulators [Transcription]; Region: MarR; COG1846 190304001516 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 190304001517 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 190304001518 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 190304001519 active site 190304001520 HIGH motif; other site 190304001521 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 190304001522 KMSKS motif; other site 190304001523 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 190304001524 tRNA binding surface [nucleotide binding]; other site 190304001525 anticodon binding site; other site 190304001526 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 190304001527 Uncharacterized conserved protein [Function unknown]; Region: COG5276 190304001528 Predicted GTPase [General function prediction only]; Region: COG0218 190304001529 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 190304001530 G1 box; other site 190304001531 GTP/Mg2+ binding site [chemical binding]; other site 190304001532 Switch I region; other site 190304001533 G2 box; other site 190304001534 G3 box; other site 190304001535 Switch II region; other site 190304001536 G4 box; other site 190304001537 G5 box; other site 190304001538 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 190304001539 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 190304001540 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 190304001541 Walker A motif; other site 190304001542 ATP binding site [chemical binding]; other site 190304001543 Walker B motif; other site 190304001544 arginine finger; other site 190304001545 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 190304001546 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 190304001547 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 190304001548 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 190304001549 Walker A motif; other site 190304001550 ATP binding site [chemical binding]; other site 190304001551 Walker B motif; other site 190304001552 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 190304001553 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 190304001554 oligomer interface [polypeptide binding]; other site 190304001555 active site residues [active] 190304001556 FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor) [Posttranslational modification, protein turnover, chaperones]; Region: Tig; COG0544 190304001557 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 190304001558 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 190304001559 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 190304001560 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 190304001561 DHH family; Region: DHH; pfam01368 190304001562 DHHA1 domain; Region: DHHA1; pfam02272 190304001563 Ribosome-binding factor A [Translation, ribosomal structure and biogenesis]; Region: RbfA; COG0858 190304001564 translation initiation factor IF-2; Validated; Region: infB; PRK05306 190304001565 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 190304001566 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 190304001567 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 190304001568 G1 box; other site 190304001569 putative GEF interaction site [polypeptide binding]; other site 190304001570 GTP/Mg2+ binding site [chemical binding]; other site 190304001571 Switch I region; other site 190304001572 G2 box; other site 190304001573 G3 box; other site 190304001574 Switch II region; other site 190304001575 G4 box; other site 190304001576 G5 box; other site 190304001577 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 190304001578 Translation-initiation factor 2; Region: IF-2; pfam11987 190304001579 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 190304001580 Predicted nucleic-acid-binding protein implicated in transcription termination [Transcription]; Region: COG2740 190304001581 putative RNA binding cleft [nucleotide binding]; other site 190304001582 Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]; Region: RPL8A; COG1358 190304001583 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 190304001584 NusA N-terminal domain; Region: NusA_N; pfam08529 190304001585 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 190304001586 RNA binding site [nucleotide binding]; other site 190304001587 homodimer interface [polypeptide binding]; other site 190304001588 NusA-like KH domain; Region: KH_5; pfam13184 190304001589 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 190304001590 G-X-X-G motif; other site 190304001591 Sm and related proteins; Region: Sm_like; cl00259 190304001592 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 190304001593 putative oligomer interface [polypeptide binding]; other site 190304001594 putative RNA binding site [nucleotide binding]; other site 190304001595 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 190304001596 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 190304001597 catalytic triad [active] 190304001598 catalytic triad [active] 190304001599 oxyanion hole [active] 190304001600 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 190304001601 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 190304001602 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 190304001603 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 190304001604 Guanylate kinase; Region: Guanylate_kin; pfam00625 190304001605 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 190304001606 catalytic site [active] 190304001607 G-X2-G-X-G-K; other site 190304001608 Uncharacterized stress-induced protein [Function unknown]; Region: COG1561 190304001609 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 190304001610 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 190304001611 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 190304001612 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 190304001613 beta and beta' interface [polypeptide binding]; other site 190304001614 beta' and sigma factor interface [polypeptide binding]; other site 190304001615 Zn-binding [ion binding]; other site 190304001616 active site region [active] 190304001617 catalytic site [active] 190304001618 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 190304001619 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 190304001620 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 190304001621 G-loop; other site 190304001622 DNA binding site [nucleotide binding] 190304001623 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 190304001624 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 190304001625 RPB12 interaction site [polypeptide binding]; other site 190304001626 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl19478 190304001627 RPB1 interaction site [polypeptide binding]; other site 190304001628 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 190304001629 RPB10 interaction site [polypeptide binding]; other site 190304001630 Peptidase family M23; Region: Peptidase_M23; pfam01551 190304001631 RPB11 interaction site [polypeptide binding]; other site 190304001632 RPB3 interaction site [polypeptide binding]; other site 190304001633 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 190304001634 peripheral dimer interface [polypeptide binding]; other site 190304001635 core dimer interface [polypeptide binding]; other site 190304001636 L10 interface [polypeptide binding]; other site 190304001637 L11 interface [polypeptide binding]; other site 190304001638 putative EF-Tu interaction site [polypeptide binding]; other site 190304001639 putative EF-G interaction site [polypeptide binding]; other site 190304001640 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 190304001641 23S rRNA interface [nucleotide binding]; other site 190304001642 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 190304001643 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 190304001644 mRNA/rRNA interface [nucleotide binding]; other site 190304001645 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 190304001646 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 190304001647 23S rRNA interface [nucleotide binding]; other site 190304001648 L7/L12 interface [polypeptide binding]; other site 190304001649 putative thiostrepton binding site; other site 190304001650 L25 interface [polypeptide binding]; other site 190304001651 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 190304001652 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 190304001653 putative homodimer interface [polypeptide binding]; other site 190304001654 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 190304001655 heterodimer interface [polypeptide binding]; other site 190304001656 homodimer interface [polypeptide binding]; other site 190304001657 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 190304001658 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 190304001659 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 190304001660 metal binding site 2 [ion binding]; metal-binding site 190304001661 putative DNA binding helix; other site 190304001662 metal binding site 1 [ion binding]; metal-binding site 190304001663 dimer interface [polypeptide binding]; other site 190304001664 structural Zn2+ binding site [ion binding]; other site 190304001665 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 190304001666 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 190304001667 Coenzyme A binding pocket [chemical binding]; other site 190304001668 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 190304001669 Autotransporter beta-domain; Region: Autotransporter; pfam03797 190304001670 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 190304001671 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 190304001672 ligand binding site [chemical binding]; other site 190304001673 Adhesion protein FadA; Region: FadA; pfam09403 190304001674 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 190304001675 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 190304001676 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 190304001677 active site 190304001678 dimer interface [polypeptide binding]; other site 190304001679 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 190304001680 dimer interface [polypeptide binding]; other site 190304001681 active site 190304001682 Autotransporter beta-domain; Region: Autotransporter; pfam03797 190304001683 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 190304001684 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 190304001685 ligand binding site [chemical binding]; other site 190304001686 Adhesion protein FadA; Region: FadA; pfam09403 190304001687 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 190304001688 non-specific DNA binding site [nucleotide binding]; other site 190304001689 salt bridge; other site 190304001690 sequence-specific DNA binding site [nucleotide binding]; other site 190304001691 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 190304001692 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 190304001693 catalytic residues [active] 190304001694 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 190304001695 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 190304001696 Zn2+ binding site [ion binding]; other site 190304001697 Mg2+ binding site [ion binding]; other site 190304001698 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 190304001699 cobyric acid synthase; Provisional; Region: PRK00784 190304001700 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 190304001701 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 190304001702 catalytic triad [active] 190304001703 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 190304001704 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 190304001705 active site 190304001706 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 190304001707 DNA methylase; Region: N6_N4_Mtase; pfam01555 190304001708 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 190304001709 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 190304001710 salt bridge; other site 190304001711 non-specific DNA binding site [nucleotide binding]; other site 190304001712 sequence-specific DNA binding site [nucleotide binding]; other site 190304001713 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 190304001714 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 190304001715 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 190304001716 WYL domain; Region: WYL; pfam13280 190304001717 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 190304001718 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 190304001719 Walker A/P-loop; other site 190304001720 ATP binding site [chemical binding]; other site 190304001721 Q-loop/lid; other site 190304001722 ABC transporter signature motif; other site 190304001723 Walker B; other site 190304001724 D-loop; other site 190304001725 H-loop/switch region; other site 190304001726 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 190304001727 TM-ABC transporter signature motif; other site 190304001728 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 190304001729 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 190304001730 zinc binding site [ion binding]; other site 190304001731 putative ligand binding site [chemical binding]; other site 190304001732 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 190304001733 Potassium binding sites [ion binding]; other site 190304001734 Cesium cation binding sites [ion binding]; other site 190304001735 Predicted membrane protein [Function unknown]; Region: COG3619 190304001736 Predicted membrane protein [Function unknown]; Region: COG3212 190304001737 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 190304001738 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 190304001739 Domain of unknown function (DUF4480); Region: DUF4480; pfam13715 190304001740 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 190304001741 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 190304001742 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 190304001743 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; cl03075 190304001744 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 190304001745 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 190304001746 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 190304001747 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 190304001748 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 190304001749 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 190304001750 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 190304001751 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 190304001752 Walker A motif; other site 190304001753 ATP binding site [chemical binding]; other site 190304001754 Walker B motif; other site 190304001755 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 190304001756 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 190304001757 Walker A motif; other site 190304001758 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 190304001759 Subtilase family; Region: Peptidase_S8; pfam00082 190304001760 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 190304001761 active site 190304001762 catalytic triad [active] 190304001763 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 190304001764 EamA-like transporter family; Region: EamA; pfam00892 190304001765 EamA-like transporter family; Region: EamA; pfam00892 190304001766 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 190304001767 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 190304001768 ABC transporter; Region: ABC_tran_2; pfam12848 190304001769 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 190304001770 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 190304001771 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 190304001772 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 190304001773 Predicted membrane protein [Function unknown]; Region: COG1288 190304001774 galactokinase; Provisional; Region: PRK05322 190304001775 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 190304001776 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 190304001777 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 190304001778 Galactose-1-phosphate uridyltransferase [Carbohydrate transport and metabolism]; Region: GalT; COG4468 190304001779 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 190304001780 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 190304001781 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 190304001782 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 190304001783 NAD binding site [chemical binding]; other site 190304001784 homodimer interface [polypeptide binding]; other site 190304001785 active site 190304001786 substrate binding site [chemical binding]; other site 190304001787 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304001788 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 190304001789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304001790 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304001791 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304001792 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304001793 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304001794 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304001795 MORN repeat variant; Region: MORN_2; pfam07661 190304001796 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304001797 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 190304001798 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 190304001799 putative tRNA-binding site [nucleotide binding]; other site 190304001800 B3/4 domain; Region: B3_4; pfam03483 190304001801 tRNA synthetase B5 domain; Region: B5; smart00874 190304001802 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 190304001803 dimer interface [polypeptide binding]; other site 190304001804 motif 1; other site 190304001805 motif 3; other site 190304001806 motif 2; other site 190304001807 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 190304001808 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 190304001809 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 190304001810 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 190304001811 dimer interface [polypeptide binding]; other site 190304001812 motif 1; other site 190304001813 active site 190304001814 motif 2; other site 190304001815 motif 3; other site 190304001816 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 190304001817 active site 190304001818 metal binding site [ion binding]; metal-binding site 190304001819 homotetramer interface [polypeptide binding]; other site 190304001820 DNA gyrase subunit A; Validated; Region: PRK05560 190304001821 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 190304001822 CAP-like domain; other site 190304001823 active site 190304001824 primary dimer interface [polypeptide binding]; other site 190304001825 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 190304001826 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 190304001827 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 190304001828 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 190304001829 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 190304001830 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 190304001831 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 190304001832 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 190304001833 ATP binding site [chemical binding]; other site 190304001834 Mg2+ binding site [ion binding]; other site 190304001835 G-X-G motif; other site 190304001836 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 190304001837 anchoring element; other site 190304001838 dimer interface [polypeptide binding]; other site 190304001839 ATP binding site [chemical binding]; other site 190304001840 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 190304001841 active site 190304001842 putative metal-binding site [ion binding]; other site 190304001843 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 190304001844 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 190304001845 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 190304001846 Walker A/P-loop; other site 190304001847 ATP binding site [chemical binding]; other site 190304001848 Q-loop/lid; other site 190304001849 ABC transporter signature motif; other site 190304001850 Walker B; other site 190304001851 D-loop; other site 190304001852 H-loop/switch region; other site 190304001853 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 190304001854 RNA binding surface [nucleotide binding]; other site 190304001855 Ribonuclease P; Region: Ribonuclease_P; pfam00825 190304001856 hypothetical protein; Validated; Region: PRK00041 190304001857 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 190304001858 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 190304001859 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 190304001860 G-X-X-G motif; other site 190304001861 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 190304001862 RxxxH motif; other site 190304001863 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 190304001864 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 190304001865 trmE is a tRNA modification GTPase; Region: trmE; cd04164 190304001866 G1 box; other site 190304001867 GTP/Mg2+ binding site [chemical binding]; other site 190304001868 Switch I region; other site 190304001869 G2 box; other site 190304001870 Switch II region; other site 190304001871 G3 box; other site 190304001872 G4 box; other site 190304001873 G5 box; other site 190304001874 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 190304001875 Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]; Region: GidA; COG0445 190304001876 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 190304001877 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 190304001878 Quinolinate synthetase A protein; Region: NadA; pfam02445 190304001879 L-aspartate oxidase; Provisional; Region: PRK06175 190304001880 FAD binding domain; Region: FAD_binding_2; pfam00890 190304001881 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06559 190304001882 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 190304001883 dimerization interface [polypeptide binding]; other site 190304001884 active site 190304001885 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 190304001886 HTH domain; Region: HTH_11; pfam08279 190304001887 3H domain; Region: 3H; pfam02829 190304001888 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 190304001889 AAA domain; Region: AAA_17; cl19128 190304001890 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 190304001891 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 190304001892 Fic family protein [Function unknown]; Region: COG3177 190304001893 Fic/DOC family; Region: Fic; pfam02661 190304001894 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 190304001895 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 190304001896 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 190304001897 ATP binding site [chemical binding]; other site 190304001898 putative Mg++ binding site [ion binding]; other site 190304001899 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 190304001900 nucleotide binding region [chemical binding]; other site 190304001901 ATP-binding site [chemical binding]; other site 190304001902 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 190304001903 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 190304001904 RNA binding surface [nucleotide binding]; other site 190304001905 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 190304001906 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 190304001907 Uncharacterized protein, involved in the regulation of septum location [Cell envelope biogenesis, outer membrane]; Region: SpoVG; COG2088 190304001908 hypothetical protein; Provisional; Region: PRK11588 190304001909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304001910 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304001911 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304001912 MORN repeat variant; Region: MORN_2; pfam07661 190304001913 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 190304001914 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 190304001915 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 190304001916 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 190304001917 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 190304001918 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 190304001919 Predicted choloylglycine hydrolase [General function prediction only]; Region: COG4927 190304001920 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 190304001921 active site 190304001922 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 190304001923 Predicted membrane protein [Function unknown]; Region: COG2323 190304001924 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 190304001925 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 190304001926 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 190304001927 putative active site [active] 190304001928 putative metal binding site [ion binding]; other site 190304001929 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 190304001930 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 190304001931 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 190304001932 putative dimer interface [polypeptide binding]; other site 190304001933 putative anticodon binding site; other site 190304001934 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 190304001935 homodimer interface [polypeptide binding]; other site 190304001936 motif 1; other site 190304001937 motif 2; other site 190304001938 active site 190304001939 motif 3; other site 190304001940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4224 190304001941 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 190304001942 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304001943 monofunctional chorismate mutase, gram positive-type, clade 2; Region: CM_mono_grmpos; TIGR01805 190304001944 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 190304001945 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 190304001946 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 190304001947 shikimate binding site; other site 190304001948 NAD(P) binding site [chemical binding]; other site 190304001949 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 190304001950 trimer interface [polypeptide binding]; other site 190304001951 active site 190304001952 dimer interface [polypeptide binding]; other site 190304001953 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 190304001954 active site 190304001955 putative catalytic site [active] 190304001956 DNA binding site [nucleotide binding] 190304001957 putative phosphate binding site [ion binding]; other site 190304001958 metal binding site A [ion binding]; metal-binding site 190304001959 AP binding site [nucleotide binding]; other site 190304001960 metal binding site B [ion binding]; metal-binding site 190304001961 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 190304001962 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 190304001963 active site 190304001964 motif I; other site 190304001965 motif II; other site 190304001966 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 190304001967 electron transport complex protein RnfC; Provisional; Region: PRK05035 190304001968 FMN-binding domain; Region: FMN_bind; cl01081 190304001969 L-aspartate oxidase; Provisional; Region: PRK06175 190304001970 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 190304001971 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 190304001972 putative ArsC-like catalytic residues; other site 190304001973 putative TRX-like catalytic residues [active] 190304001974 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 190304001975 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 190304001976 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 190304001977 active site 190304001978 HIGH motif; other site 190304001979 dimer interface [polypeptide binding]; other site 190304001980 KMSKS motif; other site 190304001981 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 190304001982 RNA binding surface [nucleotide binding]; other site 190304001983 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 190304001984 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 190304001985 Coenzyme A binding pocket [chemical binding]; other site 190304001986 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 190304001987 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 190304001988 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 190304001989 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 190304001990 minor groove reading motif; other site 190304001991 helix-hairpin-helix signature motif; other site 190304001992 substrate binding pocket [chemical binding]; other site 190304001993 active site 190304001994 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 190304001995 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 190304001996 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 190304001997 catalytic residue [active] 190304001998 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 190304001999 trimerization site [polypeptide binding]; other site 190304002000 active site 190304002001 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 190304002002 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 190304002003 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 190304002004 active site 190304002005 Zn binding site [ion binding]; other site 190304002006 Apolipoprotein A1/A4/E domain; Region: Apolipoprotein; pfam01442 190304002007 Late embryogenesis abundant protein; Region: LEA_4; pfam02987 190304002008 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 190304002009 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 190304002010 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 190304002011 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 190304002012 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 190304002013 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 190304002014 RNA binding site [nucleotide binding]; other site 190304002015 HAMP domain; Region: HAMP; pfam00672 190304002016 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 190304002017 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 190304002018 ATP binding site [chemical binding]; other site 190304002019 Mg2+ binding site [ion binding]; other site 190304002020 G-X-G motif; other site 190304002021 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 190304002022 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 190304002023 active site 190304002024 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 190304002025 active site 190304002026 HIGH motif; other site 190304002027 HIGH motif; other site 190304002028 nucleotide binding site [chemical binding]; other site 190304002029 KMSKS motif; other site 190304002030 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 190304002031 tRNA binding surface [nucleotide binding]; other site 190304002032 anticodon binding site; other site 190304002033 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 190304002034 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 190304002035 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 190304002036 dimer interface [polypeptide binding]; other site 190304002037 motif 1; other site 190304002038 active site 190304002039 motif 2; other site 190304002040 motif 3; other site 190304002041 Glycyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]; Region: GlyS; COG0751 190304002042 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 190304002043 DALR anticodon binding domain; Region: DALR_1; pfam05746 190304002044 GTP cyclohydrolase I [Coenzyme metabolism]; Region: FolE; COG0302 190304002045 active site 190304002046 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 190304002047 homooctamer interface [polypeptide binding]; other site 190304002048 active site 190304002049 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 190304002050 catalytic center binding site [active] 190304002051 ATP binding site [chemical binding]; other site 190304002052 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 190304002053 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 190304002054 substrate binding pocket [chemical binding]; other site 190304002055 dimer interface [polypeptide binding]; other site 190304002056 inhibitor binding site; inhibition site 190304002057 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 190304002058 putative hexamer interface [polypeptide binding]; other site 190304002059 putative hexagonal pore; other site 190304002060 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 190304002061 G1 box; other site 190304002062 GTP/Mg2+ binding site [chemical binding]; other site 190304002063 G2 box; other site 190304002064 Switch I region; other site 190304002065 G3 box; other site 190304002066 Switch II region; other site 190304002067 G4 box; other site 190304002068 G5 box; other site 190304002069 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 190304002070 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 190304002071 active site 190304002072 phosphorylation site [posttranslational modification] 190304002073 intermolecular recognition site; other site 190304002074 dimerization interface [polypeptide binding]; other site 190304002075 ANTAR domain; Region: ANTAR; pfam03861 190304002076 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 190304002077 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 190304002078 Histidine kinase; Region: HisKA_2; pfam07568 190304002079 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 190304002080 ATP binding site [chemical binding]; other site 190304002081 Mg2+ binding site [ion binding]; other site 190304002082 G-X-G motif; other site 190304002083 Ethanolamine utilization protein, possible chaperonin protecting lyase from inhibition [Amino acid transport and metabolism]; Region: EutA; COG4819 190304002084 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 190304002085 Peptidase family M13; Region: Peptidase_M13; pfam01431 190304002086 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 190304002087 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 190304002088 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 190304002089 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 190304002090 putative hexamer interface [polypeptide binding]; other site 190304002091 putative hexagonal pore; other site 190304002092 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 190304002093 putative hexamer interface [polypeptide binding]; other site 190304002094 putative hexagonal pore; other site 190304002095 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 190304002096 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 190304002097 Hexamer interface [polypeptide binding]; other site 190304002098 Hexagonal pore residue; other site 190304002099 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 190304002100 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 190304002101 Hexamer interface [polypeptide binding]; other site 190304002102 Hexagonal pore residue; other site 190304002103 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 190304002104 putative catalytic cysteine [active] 190304002105 Ethanolamine utilization cobalamin adenosyltransferase [Amino acid transport and metabolism]; Region: EutT; COG4812 190304002106 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 190304002107 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 190304002108 Hexamer/Pentamer interface [polypeptide binding]; other site 190304002109 central pore; other site 190304002110 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutH; COG3192 190304002111 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 190304002112 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 190304002113 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 190304002114 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 190304002115 putative active site [active] 190304002116 metal binding site [ion binding]; metal-binding site 190304002117 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 190304002118 catalytic residues [active] 190304002119 Inorganic pyrophosphatase [Energy production and conversion]; Region: Ppa; COG0221 190304002120 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 190304002121 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; cd00322 190304002122 FAD binding pocket [chemical binding]; other site 190304002123 conserved FAD binding motif [chemical binding]; other site 190304002124 phosphate binding motif [ion binding]; other site 190304002125 beta-alpha-beta structure motif; other site 190304002126 NAD binding pocket [chemical binding]; other site 190304002127 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 190304002128 ATP cone domain; Region: ATP-cone; pfam03477 190304002129 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09209 190304002130 Class I ribonucleotide reductase; Region: RNR_I; cd01679 190304002131 active site 190304002132 dimer interface [polypeptide binding]; other site 190304002133 catalytic residues [active] 190304002134 effector binding site; other site 190304002135 R2 peptide binding site; other site 190304002136 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 190304002137 dimer interface [polypeptide binding]; other site 190304002138 putative radical transfer pathway; other site 190304002139 diiron center [ion binding]; other site 190304002140 tyrosyl radical; other site 190304002141 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 190304002142 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 190304002143 Coenzyme A binding pocket [chemical binding]; other site 190304002144 Uncharacterized conserved protein [Function unknown]; Region: COG4832 190304002145 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 190304002146 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 190304002147 Na binding site [ion binding]; other site 190304002148 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 190304002149 putative dimer interface [polypeptide binding]; other site 190304002150 catalytic triad [active] 190304002151 seryl-tRNA synthetase; Provisional; Region: PRK05431 190304002152 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 190304002153 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 190304002154 dimer interface [polypeptide binding]; other site 190304002155 active site 190304002156 motif 1; other site 190304002157 motif 2; other site 190304002158 motif 3; other site 190304002159 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 190304002160 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 190304002161 HrcA protein C terminal domain; Region: HrcA; pfam01628 190304002162 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 190304002163 dimer interface [polypeptide binding]; other site 190304002164 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 190304002165 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 190304002166 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 190304002167 nucleotide binding site [chemical binding]; other site 190304002168 NEF interaction site [polypeptide binding]; other site 190304002169 SBD interface [polypeptide binding]; other site 190304002170 Ribonuclease H2-B is a subunit of the eukaryotic RNase H complex which cleaves RNA-DNA hybrids; Region: RNase_H2-B; cl18968 190304002171 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 190304002172 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 190304002173 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 190304002174 DNA binding site [nucleotide binding] 190304002175 active site 190304002176 chaperone protein DnaJ; Provisional; Region: PRK10767 190304002177 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 190304002178 HSP70 interaction site [polypeptide binding]; other site 190304002179 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 190304002180 substrate binding site [polypeptide binding]; other site 190304002181 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cl19048 190304002182 dimer interface [polypeptide binding]; other site 190304002183 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 190304002184 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1672 190304002185 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; cl18944 190304002186 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 190304002187 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 190304002188 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 190304002189 FeS/SAM binding site; other site 190304002190 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 190304002191 Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]; Region: HypB; COG0378 190304002192 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 190304002193 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 190304002194 Walker A/P-loop; other site 190304002195 ATP binding site [chemical binding]; other site 190304002196 Q-loop/lid; other site 190304002197 ABC transporter signature motif; other site 190304002198 Walker B; other site 190304002199 H-loop/switch region; other site 190304002200 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 190304002201 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 190304002202 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 190304002203 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 190304002204 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 190304002205 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 190304002206 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 190304002207 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cl17393 190304002208 DNA-binding interface [nucleotide binding]; DNA binding site 190304002209 Integrase core domain; Region: rve_2; pfam13333 190304002210 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 190304002211 Transposase; Region: DEDD_Tnp_IS110; pfam01548 190304002212 putative phosphate acyltransferase; Provisional; Region: PRK05331 190304002213 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 190304002214 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 190304002215 dimer interface [polypeptide binding]; other site 190304002216 active site 190304002217 CoA binding pocket [chemical binding]; other site 190304002218 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 190304002219 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 190304002220 acyl carrier protein; Provisional; Region: acpP; PRK00982 190304002221 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 190304002222 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 190304002223 dimer interface [polypeptide binding]; other site 190304002224 active site 190304002225 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 190304002226 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 190304002227 dimerization interface [polypeptide binding]; other site 190304002228 active site 190304002229 metal binding site [ion binding]; metal-binding site 190304002230 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 190304002231 dsRNA binding site [nucleotide binding]; other site 190304002232 Histone acetyltransferase [Transcription / Chromatin structure and dynamics]; Region: ELP3; COG1243 190304002233 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 190304002234 FeS/SAM binding site; other site 190304002235 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 190304002236 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 190304002237 homodimer interface [polypeptide binding]; other site 190304002238 oligonucleotide binding site [chemical binding]; other site 190304002239 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 190304002240 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 190304002241 active site 190304002242 (T/H)XGH motif; other site 190304002243 Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]; Region: Sms; COG1066 190304002244 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 190304002245 Walker A motif/ATP binding site; other site 190304002246 ATP binding site [chemical binding]; other site 190304002247 Walker B motif; other site 190304002248 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 190304002249 Predicted nucleic-acid-binding protein (contains the HHH domain) [General function prediction only]; Region: COG1623 190304002250 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 190304002251 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 190304002252 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 190304002253 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 190304002254 putative active site [active] 190304002255 putative NTP binding site [chemical binding]; other site 190304002256 putative nucleic acid binding site [nucleotide binding]; other site 190304002257 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 190304002258 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 190304002259 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 190304002260 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 190304002261 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 190304002262 amidase catalytic site [active] 190304002263 Zn binding residues [ion binding]; other site 190304002264 substrate binding site [chemical binding]; other site 190304002265 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 190304002266 GTP-binding protein Der; Reviewed; Region: PRK00093 190304002267 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 190304002268 G1 box; other site 190304002269 GTP/Mg2+ binding site [chemical binding]; other site 190304002270 Switch I region; other site 190304002271 G2 box; other site 190304002272 Switch II region; other site 190304002273 G3 box; other site 190304002274 G4 box; other site 190304002275 G5 box; other site 190304002276 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 190304002277 G1 box; other site 190304002278 GTP/Mg2+ binding site [chemical binding]; other site 190304002279 Switch I region; other site 190304002280 G2 box; other site 190304002281 G3 box; other site 190304002282 Switch II region; other site 190304002283 G4 box; other site 190304002284 G5 box; other site 190304002285 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 190304002286 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 190304002287 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 190304002288 RNA binding surface [nucleotide binding]; other site 190304002289 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 190304002290 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 190304002291 FMN binding site [chemical binding]; other site 190304002292 substrate binding site [chemical binding]; other site 190304002293 putative catalytic residue [active] 190304002294 Septum formation inhibitor [Cell division and chromosome partitioning]; Region: MinC; COG0850 190304002295 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 190304002296 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 190304002297 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 190304002298 P-loop; other site 190304002299 ADP binding residues [chemical binding]; other site 190304002300 Switch I; other site 190304002301 Switch II; other site 190304002302 Septum formation topological specificity factor [Cell division and chromosome partitioning]; Region: MinE; COG0851 190304002303 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 190304002304 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 190304002305 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 190304002306 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 190304002307 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 190304002308 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 190304002309 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 190304002310 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 190304002311 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 190304002312 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 190304002313 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 190304002314 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 190304002315 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 190304002316 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 190304002317 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 190304002318 Karyopherin (importin) beta [Intracellular trafficking and secretion]; Region: KAP95; COG5215 190304002319 Uncharacterized protein with conserved CXXC pairs [Function unknown]; Region: COG3862 190304002320 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 190304002321 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 190304002322 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 190304002323 NAD binding site [chemical binding]; other site 190304002324 Predicted dehydrogenase [General function prediction only]; Region: COG0579 190304002325 hydroxyglutarate oxidase; Provisional; Region: PRK11728; cl19156 190304002326 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 190304002327 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 190304002328 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 190304002329 putative active site [active] 190304002330 putative metal-binding site [ion binding]; other site 190304002331 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 190304002332 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 190304002333 catalytic residues [active] 190304002334 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 190304002335 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 190304002336 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 190304002337 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 190304002338 active site 190304002339 phosphorylation site [posttranslational modification] 190304002340 intermolecular recognition site; other site 190304002341 dimerization interface [polypeptide binding]; other site 190304002342 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 190304002343 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 190304002344 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 190304002345 Cache domain; Region: Cache_1; pfam02743 190304002346 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 190304002347 dimerization interface [polypeptide binding]; other site 190304002348 Histidine kinase; Region: His_kinase; pfam06580 190304002349 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 190304002350 ATP binding site [chemical binding]; other site 190304002351 Mg2+ binding site [ion binding]; other site 190304002352 G-X-G motif; other site 190304002353 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 190304002354 Divergent AAA domain; Region: AAA_4; pfam04326 190304002355 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 190304002356 HTH domain; Region: HTH_11; pfam08279 190304002357 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 190304002358 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_21; cd08520 190304002359 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 190304002360 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 190304002361 dimer interface [polypeptide binding]; other site 190304002362 conserved gate region; other site 190304002363 putative PBP binding loops; other site 190304002364 ABC-ATPase subunit interface; other site 190304002365 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 190304002366 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 190304002367 dimer interface [polypeptide binding]; other site 190304002368 conserved gate region; other site 190304002369 putative PBP binding loops; other site 190304002370 ABC-ATPase subunit interface; other site 190304002371 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 190304002372 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 190304002373 Walker A/P-loop; other site 190304002374 ATP binding site [chemical binding]; other site 190304002375 Q-loop/lid; other site 190304002376 ABC transporter signature motif; other site 190304002377 Walker B; other site 190304002378 D-loop; other site 190304002379 H-loop/switch region; other site 190304002380 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 190304002381 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 190304002382 Walker A/P-loop; other site 190304002383 ATP binding site [chemical binding]; other site 190304002384 Q-loop/lid; other site 190304002385 ABC transporter signature motif; other site 190304002386 Walker B; other site 190304002387 D-loop; other site 190304002388 H-loop/switch region; other site 190304002389 Predicted transcriptional regulators [Transcription]; Region: COG1695 190304002390 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 190304002391 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 190304002392 S-adenosylmethionine binding site [chemical binding]; other site 190304002393 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 190304002394 HTH domain; Region: HTH_11; cl17392 190304002395 PRD domain; Region: PRD; pfam00874 190304002396 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 190304002397 active site 190304002398 P-loop; other site 190304002399 phosphorylation site [posttranslational modification] 190304002400 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 190304002401 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 190304002402 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 190304002403 carboxyltransferase (CT) interaction site; other site 190304002404 biotinylation site [posttranslational modification]; other site 190304002405 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 190304002406 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 190304002407 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 190304002408 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 190304002409 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 190304002410 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 190304002411 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 190304002412 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 190304002413 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 190304002414 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 190304002415 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 190304002416 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 190304002417 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 190304002418 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 190304002419 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 190304002420 active site 190304002421 motif I; other site 190304002422 motif II; other site 190304002423 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 190304002424 active site 190304002425 putative DNA-binding cleft [nucleotide binding]; other site 190304002426 dimer interface [polypeptide binding]; other site 190304002427 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 190304002428 MgtC family; Region: MgtC; pfam02308 190304002429 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 190304002430 classical (c) SDRs; Region: SDR_c; cd05233 190304002431 NAD(P) binding site [chemical binding]; other site 190304002432 active site 190304002433 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 190304002434 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 190304002435 non-specific DNA interactions [nucleotide binding]; other site 190304002436 DNA binding site [nucleotide binding] 190304002437 sequence specific DNA binding site [nucleotide binding]; other site 190304002438 putative cAMP binding site [chemical binding]; other site 190304002439 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 190304002440 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 190304002441 catalytic triad [active] 190304002442 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 190304002443 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 190304002444 active site 190304002445 phosphorylation site [posttranslational modification] 190304002446 intermolecular recognition site; other site 190304002447 dimerization interface [polypeptide binding]; other site 190304002448 LytTr DNA-binding domain; Region: LytTR; pfam04397 190304002449 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 190304002450 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 190304002451 GAF domain; Region: GAF_3; pfam13492 190304002452 Histidine kinase; Region: His_kinase; pfam06580 190304002453 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 190304002454 ATP binding site [chemical binding]; other site 190304002455 Mg2+ binding site [ion binding]; other site 190304002456 G-X-G motif; other site 190304002457 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 190304002458 Carbon starvation protein CstA; Region: CstA; pfam02554 190304002459 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 190304002460 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 190304002461 putative symporter YagG; Provisional; Region: PRK09669; cl15392 190304002462 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 190304002463 putative substrate translocation pore; other site 190304002464 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 190304002465 Competence protein; Region: Competence; pfam03772 190304002466 excinuclease ABC subunit B; Provisional; Region: PRK05298 190304002467 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 190304002468 ATP binding site [chemical binding]; other site 190304002469 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 190304002470 putative Mg++ binding site [ion binding]; other site 190304002471 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 190304002472 nucleotide binding region [chemical binding]; other site 190304002473 ATP-binding site [chemical binding]; other site 190304002474 Ultra-violet resistance protein B; Region: UvrB; pfam12344 190304002475 UvrB/uvrC motif; Region: UVR; pfam02151 190304002476 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 190304002477 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 190304002478 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 190304002479 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 190304002480 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 190304002481 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 190304002482 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 190304002483 Protein of unknown function (DUF4241); Region: DUF4241; pfam14025 190304002484 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4859 190304002485 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 190304002486 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 190304002487 Walker A/P-loop; other site 190304002488 ATP binding site [chemical binding]; other site 190304002489 Q-loop/lid; other site 190304002490 ABC transporter signature motif; other site 190304002491 Walker B; other site 190304002492 D-loop; other site 190304002493 H-loop/switch region; other site 190304002494 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 190304002495 NMT1/THI5 like; Region: NMT1; pfam09084 190304002496 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 190304002497 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 190304002498 dimer interface [polypeptide binding]; other site 190304002499 conserved gate region; other site 190304002500 putative PBP binding loops; other site 190304002501 ABC-ATPase subunit interface; other site 190304002502 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 190304002503 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 190304002504 dimerization interface [polypeptide binding]; other site 190304002505 active site 190304002506 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 190304002507 folate binding site [chemical binding]; other site 190304002508 NADP+ binding site [chemical binding]; other site 190304002509 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 190304002510 TrkA-N domain; Region: TrkA_N; pfam02254 190304002511 TrkA-C domain; Region: TrkA_C; pfam02080 190304002512 TrkA-N domain; Region: TrkA_N; pfam02254 190304002513 TrkA-C domain; Region: TrkA_C; pfam02080 190304002514 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 190304002515 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 190304002516 active site 190304002517 NTP binding site [chemical binding]; other site 190304002518 metal binding triad [ion binding]; metal-binding site 190304002519 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 190304002520 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 190304002521 Zn2+ binding site [ion binding]; other site 190304002522 Mg2+ binding site [ion binding]; other site 190304002523 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 190304002524 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 190304002525 metal-binding site [ion binding] 190304002526 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 190304002527 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 190304002528 metal-binding site [ion binding] 190304002529 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 190304002530 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 190304002531 motif II; other site 190304002532 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304002533 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304002534 Adhesion protein FadA; Region: FadA; pfam09403 190304002535 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 190304002536 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 190304002537 ligand binding site [chemical binding]; other site 190304002538 Enhancer of Polycomb C-terminus; Region: E_Pc_C; pfam06752 190304002539 tail sheath protein; Provisional; Region: 18; PHA02539 190304002540 Autotransporter beta-domain; Region: Autotransporter; pfam03797 190304002541 Fic family protein [Function unknown]; Region: COG3177 190304002542 Fic/DOC family; Region: Fic; pfam02661 190304002543 Fic family protein [Function unknown]; Region: COG3177 190304002544 Predicted membrane protein [Function unknown]; Region: COG1288 190304002545 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 190304002546 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 190304002547 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 190304002548 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 190304002549 metal-binding site [ion binding] 190304002550 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 190304002551 dimerization interface [polypeptide binding]; other site 190304002552 putative DNA binding site [nucleotide binding]; other site 190304002553 putative Zn2+ binding site [ion binding]; other site 190304002554 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 190304002555 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 190304002556 FeS/SAM binding site; other site 190304002557 Pyruvate-formate lyase [Energy production and conversion]; Region: PflD; COG1882 190304002558 Pyruvate formate lyase 1; Region: PFL1; cd01678 190304002559 coenzyme A binding site [chemical binding]; other site 190304002560 active site 190304002561 catalytic residues [active] 190304002562 glycine loop; other site 190304002563 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 190304002564 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 190304002565 Adhesion protein FadA; Region: FadA; pfam09403 190304002566 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 190304002567 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 190304002568 Peptidase family M23; Region: Peptidase_M23; pfam01551 190304002569 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 190304002570 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 190304002571 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 190304002572 Walker A/P-loop; other site 190304002573 ATP binding site [chemical binding]; other site 190304002574 Q-loop/lid; other site 190304002575 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 190304002576 ABC transporter signature motif; other site 190304002577 Walker B; other site 190304002578 D-loop; other site 190304002579 H-loop/switch region; other site 190304002580 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 190304002581 GTPase Era; Reviewed; Region: era; PRK00089 190304002582 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 190304002583 G1 box; other site 190304002584 GTP/Mg2+ binding site [chemical binding]; other site 190304002585 Switch I region; other site 190304002586 G2 box; other site 190304002587 Switch II region; other site 190304002588 G3 box; other site 190304002589 G4 box; other site 190304002590 G5 box; other site 190304002591 KH domain; Region: KH_2; pfam07650 190304002592 enoyl-CoA hydratase; Provisional; Region: PRK06688 190304002593 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 190304002594 substrate binding site [chemical binding]; other site 190304002595 oxyanion hole (OAH) forming residues; other site 190304002596 trimer interface [polypeptide binding]; other site 190304002597 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 190304002598 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 190304002599 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 190304002600 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 190304002601 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 190304002602 PhoU domain; Region: PhoU; pfam01895 190304002603 PhoU domain; Region: PhoU; pfam01895 190304002604 Uncharacterized conserved protein [Function unknown]; Region: COG4866 190304002605 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 190304002606 dipeptidase, putative; Region: dipeptidaselike; TIGR01887 190304002607 active site 190304002608 metal binding site [ion binding]; metal-binding site 190304002609 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 190304002610 DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]; Region: PolC; COG2176 190304002611 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 190304002612 generic binding surface II; other site 190304002613 generic binding surface I; other site 190304002614 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 190304002615 active site 190304002616 putative PHP Thumb interface [polypeptide binding]; other site 190304002617 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 190304002618 active site 190304002619 catalytic site [active] 190304002620 substrate binding site [chemical binding]; other site 190304002621 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 190304002622 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 190304002623 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4752 190304002624 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 190304002625 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 190304002626 RimM N-terminal domain; Region: RimM; pfam01782 190304002627 PRC-barrel domain; Region: PRC; pfam05239 190304002628 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cd02409 190304002629 G-X-X-G motif; other site 190304002630 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 190304002631 S-adenosylmethionine binding site [chemical binding]; other site 190304002632 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 190304002633 active site 190304002634 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 190304002635 haemagglutination activity domain; Region: Haemagg_act; pfam05860 190304002636 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 190304002637 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 190304002638 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 190304002639 TPP-binding site [chemical binding]; other site 190304002640 dimer interface [polypeptide binding]; other site 190304002641 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 190304002642 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 190304002643 PYR/PP interface [polypeptide binding]; other site 190304002644 dimer interface [polypeptide binding]; other site 190304002645 TPP binding site [chemical binding]; other site 190304002646 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 190304002647 Family of unknown function (DUF695); Region: DUF695; pfam05117 190304002648 TIGR01619 family protein; Region: hyp_HI0040 190304002649 Regulator of ribonuclease activity B; Region: RraB; pfam06877 190304002650 recombination factor protein RarA; Reviewed; Region: PRK13342 190304002651 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 190304002652 Walker A motif; other site 190304002653 ATP binding site [chemical binding]; other site 190304002654 Walker B motif; other site 190304002655 arginine finger; other site 190304002656 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 190304002657 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 190304002658 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 190304002659 dimer interface [polypeptide binding]; other site 190304002660 motif 1; other site 190304002661 active site 190304002662 motif 2; other site 190304002663 motif 3; other site 190304002664 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 190304002665 anticodon binding site; other site 190304002666 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 190304002667 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 190304002668 dimer interface [polypeptide binding]; other site 190304002669 anticodon binding site; other site 190304002670 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 190304002671 homodimer interface [polypeptide binding]; other site 190304002672 motif 1; other site 190304002673 active site 190304002674 motif 2; other site 190304002675 GAD domain; Region: GAD; pfam02938 190304002676 motif 3; other site 190304002677 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 190304002678 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 190304002679 putative metal binding site [ion binding]; other site 190304002680 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 190304002681 ABC-ATPase subunit interface; other site 190304002682 dimer interface [polypeptide binding]; other site 190304002683 putative PBP binding regions; other site 190304002684 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 190304002685 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 190304002686 Walker A/P-loop; other site 190304002687 ATP binding site [chemical binding]; other site 190304002688 Q-loop/lid; other site 190304002689 ABC transporter signature motif; other site 190304002690 Walker B; other site 190304002691 D-loop; other site 190304002692 H-loop/switch region; other site 190304002693 Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]; Region: NifH; COG1348 190304002694 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 190304002695 Nucleotide-binding sites [chemical binding]; other site 190304002696 Walker A motif; other site 190304002697 Switch I region of nucleotide binding site; other site 190304002698 Fe4S4 binding sites [ion binding]; other site 190304002699 Switch II region of nucleotide binding site; other site 190304002700 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 190304002701 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 190304002702 Periplasmic binding protein TroA_e. 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_e; cd01142 190304002703 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 190304002704 putative ligand binding residues [chemical binding]; other site 190304002705 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 190304002706 ABC-ATPase subunit interface; other site 190304002707 dimer interface [polypeptide binding]; other site 190304002708 putative PBP binding regions; other site 190304002709 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 190304002710 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 190304002711 Walker A/P-loop; other site 190304002712 ATP binding site [chemical binding]; other site 190304002713 Q-loop/lid; other site 190304002714 ABC transporter signature motif; other site 190304002715 Walker B; other site 190304002716 D-loop; other site 190304002717 H-loop/switch region; other site 190304002718 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 190304002719 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 190304002720 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 190304002721 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 190304002722 dimer interface [polypeptide binding]; other site 190304002723 conserved gate region; other site 190304002724 putative PBP binding loops; other site 190304002725 ABC-ATPase subunit interface; other site 190304002726 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 190304002727 dimer interface [polypeptide binding]; other site 190304002728 conserved gate region; other site 190304002729 putative PBP binding loops; other site 190304002730 ABC-ATPase subunit interface; other site 190304002731 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 190304002732 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 190304002733 Walker A/P-loop; other site 190304002734 ATP binding site [chemical binding]; other site 190304002735 Q-loop/lid; other site 190304002736 ABC transporter signature motif; other site 190304002737 Walker B; other site 190304002738 D-loop; other site 190304002739 H-loop/switch region; other site 190304002740 TOBE domain; Region: TOBE_2; pfam08402 190304002741 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 190304002742 ATP cone domain; Region: ATP-cone; pfam03477 190304002743 Class III ribonucleotide reductase; Region: RNR_III; cd01675 190304002744 effector binding site; other site 190304002745 active site 190304002746 Zn binding site [ion binding]; other site 190304002747 glycine loop; other site 190304002748 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 190304002749 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 190304002750 FeS/SAM binding site; other site 190304002751 16S rRNA methyltransferase B; Provisional; Region: PRK14902 190304002752 NusB family; Region: NusB; pfam01029 190304002753 putative RNA binding site [nucleotide binding]; other site 190304002754 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 190304002755 S-adenosylmethionine binding site [chemical binding]; other site 190304002756 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 190304002757 S-adenosylmethionine binding site [chemical binding]; other site 190304002758 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 190304002759 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 190304002760 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 190304002761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304002762 catalytic residue [active] 190304002763 Phosphoribosyl-dephospho-CoA transferase (holo-ACP synthetase) [Coenzyme metabolism / Lipid metabolism]; Region: CitX; COG3697 190304002764 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 190304002765 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 190304002766 putative active site [active] 190304002767 (T/H)XGH motif; other site 190304002768 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 190304002769 heat shock protein 90; Provisional; Region: PRK05218 190304002770 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 190304002771 ATP binding site [chemical binding]; other site 190304002772 Mg2+ binding site [ion binding]; other site 190304002773 G-X-G motif; other site 190304002774 Hsp90 protein; Region: HSP90; pfam00183 190304002775 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 190304002776 catalytic residue [active] 190304002777 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 190304002778 23S rRNA binding site [nucleotide binding]; other site 190304002779 L21 binding site [polypeptide binding]; other site 190304002780 L13 binding site [polypeptide binding]; other site 190304002781 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 190304002782 Translation initiation factor 3 (IF-3) [Translation, ribosomal structure and biogenesis]; Region: InfC; COG0290 190304002783 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 190304002784 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 190304002785 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 190304002786 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 190304002787 23S rRNA interface [nucleotide binding]; other site 190304002788 L3 interface [polypeptide binding]; other site 190304002789 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 190304002790 Uncharacterized protein conserved in bacteria (DUF2262); Region: DUF2262; pfam10020 190304002791 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 190304002792 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 190304002793 oligomer interface [polypeptide binding]; other site 190304002794 metal binding site [ion binding]; metal-binding site 190304002795 metal binding site [ion binding]; metal-binding site 190304002796 Cl binding site [ion binding]; other site 190304002797 aspartate ring; other site 190304002798 basic sphincter; other site 190304002799 putative hydrophobic gate; other site 190304002800 periplasmic entrance; other site 190304002801 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 190304002802 hypothetical protein; Provisional; Region: PRK08637 190304002803 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 190304002804 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304002805 homodimer interface [polypeptide binding]; other site 190304002806 catalytic residue [active] 190304002807 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 190304002808 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 190304002809 ligand binding site [chemical binding]; other site 190304002810 Bacterial SH3 domain; Region: SH3_3; pfam08239 190304002811 Positive regulator of sigma E activity [Signal transduction mechanisms]; Region: RseC; COG3086 190304002812 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 190304002813 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 190304002814 Nucleoside recognition; Region: Gate; pfam07670 190304002815 Predicted permease [General function prediction only]; Region: COG2056 190304002816 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 190304002817 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 190304002818 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 190304002819 active site 190304002820 phosphodiesterase; Provisional; Region: PRK12704 190304002821 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 190304002822 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 190304002823 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 190304002824 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 190304002825 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5341 190304002826 phosphatidylserine decarboxylase; Provisional; Region: PRK00723 190304002827 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 190304002828 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 190304002829 active site 190304002830 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 190304002831 putative active site [active] 190304002832 dimerization interface [polypeptide binding]; other site 190304002833 putative tRNAtyr binding site [nucleotide binding]; other site 190304002834 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 190304002835 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 190304002836 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 190304002837 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 190304002838 EamA-like transporter family; Region: EamA; pfam00892 190304002839 S-adenosylmethionine synthetase; Validated; Region: PRK05250 190304002840 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 190304002841 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 190304002842 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 190304002843 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 190304002844 dimer interface [polypeptide binding]; other site 190304002845 active site 190304002846 metal binding site [ion binding]; metal-binding site 190304002847 glutathione binding site [chemical binding]; other site 190304002848 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 190304002849 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 190304002850 gamma subunit interface [polypeptide binding]; other site 190304002851 epsilon subunit interface [polypeptide binding]; other site 190304002852 LBP interface [polypeptide binding]; other site 190304002853 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 190304002854 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 190304002855 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 190304002856 alpha subunit interaction interface [polypeptide binding]; other site 190304002857 Walker A motif; other site 190304002858 ATP binding site [chemical binding]; other site 190304002859 Walker B motif; other site 190304002860 inhibitor binding site; inhibition site 190304002861 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 190304002862 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 190304002863 core domain interface [polypeptide binding]; other site 190304002864 delta subunit interface [polypeptide binding]; other site 190304002865 epsilon subunit interface [polypeptide binding]; other site 190304002866 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 190304002867 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 190304002868 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 190304002869 beta subunit interaction interface [polypeptide binding]; other site 190304002870 Walker A motif; other site 190304002871 ATP binding site [chemical binding]; other site 190304002872 Walker B motif; other site 190304002873 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 190304002874 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; COG0712 190304002875 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 190304002876 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 190304002877 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 190304002878 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 190304002879 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 190304002880 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 190304002881 active site 190304002882 substrate binding site [chemical binding]; other site 190304002883 metal binding site [ion binding]; metal-binding site 190304002884 Predicted membrane protein [Function unknown]; Region: COG4769 190304002885 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 190304002886 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 190304002887 tetramer interface [polypeptide binding]; other site 190304002888 active site 190304002889 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 190304002890 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 190304002891 Coenzyme A binding pocket [chemical binding]; other site 190304002892 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 190304002893 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 190304002894 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 190304002895 Catalytic site [active] 190304002896 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 190304002897 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 190304002898 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 190304002899 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 190304002900 similar to hypothetical protein 190304002901 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 190304002902 DHH family; Region: DHH; pfam01368 190304002903 DHHA1 domain; Region: DHHA1; pfam02272 190304002904 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 190304002905 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate binding protein; Region: PhnS; TIGR03227 190304002906 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 190304002907 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 190304002908 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 190304002909 Walker A/P-loop; other site 190304002910 ATP binding site [chemical binding]; other site 190304002911 Q-loop/lid; other site 190304002912 ABC transporter signature motif; other site 190304002913 Walker B; other site 190304002914 D-loop; other site 190304002915 H-loop/switch region; other site 190304002916 TOBE domain; Region: TOBE_2; pfam08402 190304002917 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 190304002918 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 190304002919 dimer interface [polypeptide binding]; other site 190304002920 conserved gate region; other site 190304002921 putative PBP binding loops; other site 190304002922 ABC-ATPase subunit interface; other site 190304002923 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 190304002924 dimer interface [polypeptide binding]; other site 190304002925 conserved gate region; other site 190304002926 putative PBP binding loops; other site 190304002927 ABC-ATPase subunit interface; other site 190304002928 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 190304002929 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 190304002930 NAD binding site [chemical binding]; other site 190304002931 homodimer interface [polypeptide binding]; other site 190304002932 active site 190304002933 substrate binding site [chemical binding]; other site 190304002934 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 190304002935 GAF domain; Region: GAF_3; pfam13492 190304002936 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_3; cd03813 190304002937 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 190304002938 Predicted membrane protein [Function unknown]; Region: COG4267 190304002939 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 190304002940 Glycoside-hydrolase family GH114; Region: Glyco_hydro_114; cl00997 190304002941 Predicted extracellular endo alpha-1,4 polygalactosaminidase or related polysaccharide hydrolase [Carbohydrate transport and metabolism]; Region: COG2342 190304002942 Autotransporter beta-domain; Region: Autotransporter; pfam03797 190304002943 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 190304002944 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 190304002945 Uncharacterized conserved protein [Function unknown]; Region: COG5015 190304002946 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 190304002947 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 190304002948 active site 190304002949 motif I; other site 190304002950 motif II; other site 190304002951 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 190304002952 Radical SAM superfamily; Region: Radical_SAM; pfam04055 190304002953 FeS/SAM binding site; other site 190304002954 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 190304002955 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 190304002956 putative ADP-binding pocket [chemical binding]; other site 190304002957 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 190304002958 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 190304002959 putative active site [active] 190304002960 putative metal binding site [ion binding]; other site 190304002961 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 190304002962 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 190304002963 EamA-like transporter family; Region: EamA; pfam00892 190304002964 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 190304002965 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 190304002966 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 190304002967 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 190304002968 dimer interface [polypeptide binding]; other site 190304002969 conserved gate region; other site 190304002970 putative PBP binding loops; other site 190304002971 ABC-ATPase subunit interface; other site 190304002972 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 190304002973 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 190304002974 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 190304002975 dimer interface [polypeptide binding]; other site 190304002976 conserved gate region; other site 190304002977 putative PBP binding loops; other site 190304002978 ABC-ATPase subunit interface; other site 190304002979 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 190304002980 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 190304002981 Walker A/P-loop; other site 190304002982 ATP binding site [chemical binding]; other site 190304002983 Q-loop/lid; other site 190304002984 ABC transporter signature motif; other site 190304002985 Walker B; other site 190304002986 D-loop; other site 190304002987 H-loop/switch region; other site 190304002988 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 190304002989 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 190304002990 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 190304002991 Walker A/P-loop; other site 190304002992 ATP binding site [chemical binding]; other site 190304002993 Q-loop/lid; other site 190304002994 ABC transporter signature motif; other site 190304002995 Walker B; other site 190304002996 D-loop; other site 190304002997 H-loop/switch region; other site 190304002998 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 190304002999 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 190304003000 DNA binding site [nucleotide binding] 190304003001 active site 190304003002 Int/Topo IB signature motif; other site 190304003003 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 190304003004 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 190304003005 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 190304003006 similar to hypothetical protein 190304003007 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK00927 190304003008 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 190304003009 active site 190304003010 HIGH motif; other site 190304003011 dimer interface [polypeptide binding]; other site 190304003012 KMSKS motif; other site 190304003013 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 190304003014 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 190304003015 active site 190304003016 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 190304003017 dimer interface [polypeptide binding]; other site 190304003018 substrate binding site [chemical binding]; other site 190304003019 catalytic residues [active] 190304003020 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 190304003021 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 190304003022 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 190304003023 active site 190304003024 ADP/pyrophosphate binding site [chemical binding]; other site 190304003025 dimerization interface [polypeptide binding]; other site 190304003026 allosteric effector site; other site 190304003027 fructose-1,6-bisphosphate binding site; other site 190304003028 hypothetical protein; Provisional; Region: PRK05423 190304003029 recombination protein RecR; Reviewed; Region: recR; PRK00076 190304003030 RecR protein; Region: RecR; pfam02132 190304003031 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 190304003032 putative active site [active] 190304003033 putative metal-binding site [ion binding]; other site 190304003034 tetramer interface [polypeptide binding]; other site 190304003035 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 190304003036 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 190304003037 putative active site [active] 190304003038 catalytic site [active] 190304003039 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 190304003040 ATP binding site [chemical binding]; other site 190304003041 putative Mg++ binding site [ion binding]; other site 190304003042 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 190304003043 nucleotide binding region [chemical binding]; other site 190304003044 ATP-binding site [chemical binding]; other site 190304003045 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 190304003046 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 190304003047 DNA methylase; Region: N6_N4_Mtase; pfam01555 190304003048 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 190304003049 Restriction endonuclease [Defense mechanisms]; Region: COG3587 190304003050 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 190304003051 ATP binding site [chemical binding]; other site 190304003052 putative Mg++ binding site [ion binding]; other site 190304003053 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 190304003054 active site 190304003055 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 190304003056 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 190304003057 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 190304003058 dihydroorotase; Validated; Region: pyrC; PRK09357 190304003059 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 190304003060 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 190304003061 active site 190304003062 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 190304003063 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 190304003064 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 190304003065 catalytic site [active] 190304003066 subunit interface [polypeptide binding]; other site 190304003067 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 190304003068 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 190304003069 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 190304003070 Carbamoyl-phosphate synthetase large chain, oligomerization domain; Region: CPSase_L_D3; pfam02787 190304003071 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 190304003072 ATP-grasp domain; Region: ATP-grasp_4; cl17255 190304003073 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 190304003074 IMP binding site; other site 190304003075 dimer interface [polypeptide binding]; other site 190304003076 interdomain contacts; other site 190304003077 partial ornithine binding site; other site 190304003078 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 190304003079 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 190304003080 FAD binding pocket [chemical binding]; other site 190304003081 FAD binding motif [chemical binding]; other site 190304003082 phosphate binding motif [ion binding]; other site 190304003083 beta-alpha-beta structure motif; other site 190304003084 NAD binding pocket [chemical binding]; other site 190304003085 Iron coordination center [ion binding]; other site 190304003086 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 190304003087 heterodimer interface [polypeptide binding]; other site 190304003088 active site 190304003089 FMN binding site [chemical binding]; other site 190304003090 homodimer interface [polypeptide binding]; other site 190304003091 substrate binding site [chemical binding]; other site 190304003092 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 190304003093 active site 190304003094 dimer interface [polypeptide binding]; other site 190304003095 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 190304003096 active site 190304003097 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 190304003098 hypothetical protein; Provisional; Region: PRK07329 190304003099 active site 190304003100 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 190304003101 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 190304003102 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 190304003103 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 190304003104 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 190304003105 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 190304003106 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 190304003107 putative active site [active] 190304003108 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 190304003109 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 190304003110 Active Sites [active] 190304003111 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 190304003112 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 190304003113 cysteine desulfurase family protein; Region: am_tr_V_EF2568; TIGR01977 190304003114 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 190304003115 catalytic residue [active] 190304003116 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_a; cd09179 190304003117 PLD-like domain; Region: PLDc_2; pfam13091 190304003118 putative active site [active] 190304003119 catalytic site [active] 190304003120 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 190304003121 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 190304003122 ATP binding site [chemical binding]; other site 190304003123 putative Mg++ binding site [ion binding]; other site 190304003124 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 190304003125 nucleotide binding region [chemical binding]; other site 190304003126 ATP-binding site [chemical binding]; other site 190304003127 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 190304003128 AAA domain; Region: AAA_23; pfam13476 190304003129 Walker A/P-loop; other site 190304003130 ATP binding site [chemical binding]; other site 190304003131 dnd system-associated protein 4; Region: dnd_assoc_4; TIGR04062 190304003132 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 190304003133 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 190304003134 glutaminase active site [active] 190304003135 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 190304003136 dimer interface [polypeptide binding]; other site 190304003137 active site 190304003138 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 190304003139 dimer interface [polypeptide binding]; other site 190304003140 active site 190304003141 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 190304003142 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 190304003143 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 190304003144 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 190304003145 active site 190304003146 Uncharacterized Staphylococcus aureus AldA1 (SACOL0154) aldehyde dehydrogenase-like; Region: ALDH_StaphAldA1; cd07117 190304003147 NAD(P) binding site [chemical binding]; other site 190304003148 catalytic residues [active] 190304003149 Rubrerythrin [Energy production and conversion]; Region: COG1592 190304003150 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 190304003151 binuclear metal center [ion binding]; other site 190304003152 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 190304003153 iron binding site [ion binding]; other site 190304003154 Uncharacterized conserved protein [Function unknown]; Region: COG1306 190304003155 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304003156 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304003157 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 190304003158 dimer interface [polypeptide binding]; other site 190304003159 active site 190304003160 Schiff base residues; other site 190304003161 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 190304003162 30S subunit binding site; other site 190304003163 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 190304003164 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 190304003165 ATP binding site [chemical binding]; other site 190304003166 Mg2+ binding site [ion binding]; other site 190304003167 G-X-G motif; other site 190304003168 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 190304003169 ATP binding site [chemical binding]; other site 190304003170 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 190304003171 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 190304003172 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 190304003173 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 190304003174 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 190304003175 dimer interface [polypeptide binding]; other site 190304003176 putative anticodon binding site; other site 190304003177 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 190304003178 motif 1; other site 190304003179 active site 190304003180 motif 2; other site 190304003181 motif 3; other site 190304003182 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 190304003183 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 190304003184 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 190304003185 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 190304003186 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 190304003187 trimer interface [polypeptide binding]; other site 190304003188 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 190304003189 Coiled stalk of trimeric autotransporter adhesin; Region: YadA_stalk; pfam05662 190304003190 YadA-like C-terminal region; Region: YadA_anchor; pfam03895 190304003191 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 190304003192 flavodoxin FldA; Validated; Region: PRK09267 190304003193 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 190304003194 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 190304003195 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 190304003196 MMPL family; Region: MMPL; cl14618 190304003197 MMPL family; Region: MMPL; cl14618 190304003198 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 190304003199 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 190304003200 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 190304003201 FeS/SAM binding site; other site 190304003202 TRAM domain; Region: TRAM; pfam01938 190304003203 Transcription termination factor [Transcription]; Region: Rho; COG1158 190304003204 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 190304003205 RNA binding site [nucleotide binding]; other site 190304003206 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 190304003207 Walker A motif; other site 190304003208 ATP binding site [chemical binding]; other site 190304003209 Walker B motif; other site 190304003210 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 190304003211 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 190304003212 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 190304003213 Peptidase family M23; Region: Peptidase_M23; pfam01551 190304003214 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 190304003215 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 190304003216 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 190304003217 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 190304003218 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 190304003219 DNA binding residues [nucleotide binding] 190304003220 putative pectinesterase/pectinesterase inhibitor; Region: PLN02468 190304003221 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 190304003222 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 190304003223 active site 190304003224 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 190304003225 Putative lysophospholipase; Region: Hydrolase_4; cl19140 190304003226 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 190304003227 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cl17393 190304003228 DNA-binding interface [nucleotide binding]; DNA binding site 190304003229 Transposase; Region: HTH_Tnp_1; cl17663 190304003230 Integrase core domain; Region: rve; pfam00665 190304003231 Integrase core domain; Region: rve_2; pfam13333 190304003232 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 190304003233 (R)-2-Hydroxyglutarate Dehydrogenase and related dehydrogenases, NAD-binding and catalytic domains; Region: HGDH_like; cd12184 190304003234 putative homodimer interface [polypeptide binding]; other site 190304003235 putative ligand binding site [chemical binding]; other site 190304003236 putative NAD binding site [chemical binding]; other site 190304003237 catalytic site [active] 190304003238 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 190304003239 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 190304003240 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 190304003241 NAD(P) binding site [chemical binding]; other site 190304003242 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 190304003243 Predicted membrane protein [Function unknown]; Region: COG2035 190304003244 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 190304003245 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 190304003246 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 190304003247 catalytic residue [active] 190304003248 Predicted transcriptional regulator [Transcription]; Region: COG2378 190304003249 WYL domain; Region: WYL; pfam13280 190304003250 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 190304003251 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 190304003252 NAD(P) binding site [chemical binding]; other site 190304003253 homotetramer interface [polypeptide binding]; other site 190304003254 homodimer interface [polypeptide binding]; other site 190304003255 active site 190304003256 putative acyltransferase; Provisional; Region: PRK05790 190304003257 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 190304003258 dimer interface [polypeptide binding]; other site 190304003259 active site 190304003260 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 190304003261 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 190304003262 Protein-interacting V-domain of mammalian Alix and related domains; Region: V_Alix_like; cl14654 190304003263 putative YPXnL-motif binding site; other site 190304003264 Autotransporter beta-domain; Region: Autotransporter; smart00869 190304003265 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 190304003266 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 190304003267 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 190304003268 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 190304003269 homodimer interface [polypeptide binding]; other site 190304003270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304003271 catalytic residue [active] 190304003272 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 190304003273 Arginase family; Region: Arginase; cd09989 190304003274 active site 190304003275 Mn binding site [ion binding]; other site 190304003276 oligomer interface [polypeptide binding]; other site 190304003277 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 190304003278 active site 190304003279 Transcriptional regulator [Transcription]; Region: LysR; COG0583 190304003280 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 190304003281 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 190304003282 dimerization interface [polypeptide binding]; other site 190304003283 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 190304003284 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 190304003285 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 190304003286 catalytic triad [active] 190304003287 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 190304003288 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 190304003289 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 190304003290 active site 190304003291 HIGH motif; other site 190304003292 KMSK motif region; other site 190304003293 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 190304003294 tRNA binding surface [nucleotide binding]; other site 190304003295 anticodon binding site; other site 190304003296 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 190304003297 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 190304003298 active site 190304003299 nucleophile elbow; other site 190304003300 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 190304003301 Transposase; Region: DEDD_Tnp_IS110; pfam01548 190304003302 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 190304003303 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 190304003304 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 190304003305 putative ligand binding site [chemical binding]; other site 190304003306 putative NAD binding site [chemical binding]; other site 190304003307 catalytic site [active] 190304003308 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 190304003309 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 190304003310 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 190304003311 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 190304003312 flavodoxin, short chain; Region: flav_short; TIGR01753 190304003313 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 190304003314 MMPL family; Region: MMPL; cl14618 190304003315 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 190304003316 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 190304003317 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 190304003318 HlyD family secretion protein; Region: HlyD_3; pfam13437 190304003319 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 190304003320 Outer membrane efflux protein; Region: OEP; pfam02321 190304003321 Outer membrane efflux protein; Region: OEP; pfam02321 190304003322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304003323 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304003324 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 190304003325 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 190304003326 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 190304003327 Walker A/P-loop; other site 190304003328 ATP binding site [chemical binding]; other site 190304003329 Protein of unknown function (DUF342); Region: DUF342; cl19219 190304003330 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 190304003331 Q-loop/lid; other site 190304003332 ABC transporter signature motif; other site 190304003333 Walker B; other site 190304003334 D-loop; other site 190304003335 H-loop/switch region; other site 190304003336 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 190304003337 Part of AAA domain; Region: AAA_19; pfam13245 190304003338 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 190304003339 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 190304003340 Transglycosylase; Region: Transgly; pfam00912 190304003341 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 190304003342 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 190304003343 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 190304003344 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 190304003345 FeS/SAM binding site; other site 190304003346 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 190304003347 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 190304003348 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 190304003349 DNA-binding site [nucleotide binding]; DNA binding site 190304003350 RNA-binding motif; other site 190304003351 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 190304003352 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 190304003353 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 190304003354 similar to hypothetical protein 190304003355 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 190304003356 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 190304003357 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 190304003358 Predicted membrane protein [Function unknown]; Region: COG2855 190304003359 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 190304003360 DNA polymerase sliding clamp subunit (PCNA homolog) [DNA replication, recombination, and repair]; Region: DnaN; COG0592 190304003361 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 190304003362 putative DNA binding surface [nucleotide binding]; other site 190304003363 dimer interface [polypeptide binding]; other site 190304003364 beta-clamp/clamp loader binding surface; other site 190304003365 beta-clamp/translesion DNA polymerase binding surface; other site 190304003366 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 190304003367 Preprotein translocase SecG subunit; Region: SecG; pfam03840 190304003368 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 190304003369 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 190304003370 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 190304003371 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 190304003372 inhibitor-cofactor binding pocket; inhibition site 190304003373 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304003374 catalytic residue [active] 190304003375 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 190304003376 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 190304003377 putative active site [active] 190304003378 putative metal binding site [ion binding]; other site 190304003379 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 190304003380 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 190304003381 putative metal binding site; other site 190304003382 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 190304003383 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 190304003384 putative active site [active] 190304003385 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 190304003386 active site 190304003387 ATP binding site [chemical binding]; other site 190304003388 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 190304003389 putative active site [active] 190304003390 recombinase A; Provisional; Region: recA; PRK09354 190304003391 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 190304003392 hexamer interface [polypeptide binding]; other site 190304003393 Walker A motif; other site 190304003394 ATP binding site [chemical binding]; other site 190304003395 Walker B motif; other site 190304003396 Uncharacterized protein conserved in bacteria [General function prediction only]; Region: OraA; COG2137 190304003397 UGMP family protein; Validated; Region: PRK09604 190304003398 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 190304003399 nucleotide binding site [chemical binding]; other site 190304003400 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 190304003401 Cupin domain; Region: Cupin_2; pfam07883 190304003402 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 190304003403 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 190304003404 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 190304003405 catalytic residue [active] 190304003406 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 190304003407 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 190304003408 catalytic residue [active] 190304003409 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 190304003410 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 190304003411 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 190304003412 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 190304003413 non-specific DNA binding site [nucleotide binding]; other site 190304003414 salt bridge; other site 190304003415 sequence-specific DNA binding site [nucleotide binding]; other site 190304003416 Cupin domain; Region: Cupin_2; pfam07883 190304003417 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 190304003418 metal ion-dependent adhesion site (MIDAS); other site 190304003419 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 190304003420 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 190304003421 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 190304003422 active site 190304003423 substrate binding site [chemical binding]; other site 190304003424 metal binding site [ion binding]; metal-binding site 190304003425 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 190304003426 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 190304003427 FeS/SAM binding site; other site 190304003428 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 190304003429 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 190304003430 catalytic residue [active] 190304003431 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 190304003432 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 190304003433 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 190304003434 Ligand Binding Site [chemical binding]; other site 190304003435 Domain of unknown function (DUF814); Region: DUF814; pfam05670 190304003436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304003437 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 190304003438 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 190304003439 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 190304003440 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 190304003441 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 190304003442 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 190304003443 metal ion-dependent adhesion site (MIDAS); other site 190304003444 Domain of unknown function (DUF4253); Region: DUF4253; pfam14062 190304003445 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 190304003446 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 190304003447 ATP binding site [chemical binding]; other site 190304003448 putative Mg++ binding site [ion binding]; other site 190304003449 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 190304003450 nucleotide binding region [chemical binding]; other site 190304003451 ATP-binding site [chemical binding]; other site 190304003452 RQC domain; Region: RQC; pfam09382 190304003453 HRDC domain; Region: HRDC; pfam00570 190304003454 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 190304003455 MG2 domain; Region: A2M_N; pfam01835 190304003456 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 190304003457 Alpha-2-macroglobulin family; Region: A2M; pfam00207 190304003458 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 190304003459 surface patch; other site 190304003460 thioester region; other site 190304003461 specificity defining residues; other site 190304003462 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 190304003463 Transglycosylase; Region: Transgly; pfam00912 190304003464 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 190304003465 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 190304003466 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 190304003467 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 190304003468 FtsX-like permease family; Region: FtsX; pfam02687 190304003469 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 190304003470 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 190304003471 Walker A/P-loop; other site 190304003472 ATP binding site [chemical binding]; other site 190304003473 Q-loop/lid; other site 190304003474 ABC transporter signature motif; other site 190304003475 Walker B; other site 190304003476 D-loop; other site 190304003477 H-loop/switch region; other site 190304003478 Predicted membrane protein [Function unknown]; Region: COG3212 190304003479 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 190304003480 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 190304003481 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 190304003482 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 190304003483 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 190304003484 active site 190304003485 phosphorylation site [posttranslational modification] 190304003486 intermolecular recognition site; other site 190304003487 dimerization interface [polypeptide binding]; other site 190304003488 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 190304003489 DNA binding site [nucleotide binding] 190304003490 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 190304003491 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 190304003492 dimerization interface [polypeptide binding]; other site 190304003493 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 190304003494 dimer interface [polypeptide binding]; other site 190304003495 phosphorylation site [posttranslational modification] 190304003496 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 190304003497 ATP binding site [chemical binding]; other site 190304003498 Mg2+ binding site [ion binding]; other site 190304003499 G-X-G motif; other site 190304003500 Predicted transcriptional regulators [Transcription]; Region: COG1733 190304003501 dimerization interface [polypeptide binding]; other site 190304003502 putative DNA binding site [nucleotide binding]; other site 190304003503 putative Zn2+ binding site [ion binding]; other site 190304003504 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 190304003505 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 190304003506 metal binding site [ion binding]; metal-binding site 190304003507 dimer interface [polypeptide binding]; other site 190304003508 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 190304003509 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 190304003510 Part of AAA domain; Region: AAA_19; pfam13245 190304003511 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 190304003512 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; COG0774 190304003513 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 190304003514 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 190304003515 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 190304003516 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 190304003517 active site 190304003518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 190304003519 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 190304003520 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 190304003521 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 190304003522 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 190304003523 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 190304003524 Walker A/P-loop; other site 190304003525 ATP binding site [chemical binding]; other site 190304003526 Q-loop/lid; other site 190304003527 ABC transporter signature motif; other site 190304003528 Walker B; other site 190304003529 D-loop; other site 190304003530 H-loop/switch region; other site 190304003531 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 190304003532 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 190304003533 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 190304003534 Transposase; Region: DDE_Tnp_ISL3; pfam01610 190304003535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304003536 Transcriptional regulator [Transcription]; Region: LysR; COG0583 190304003537 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 190304003538 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 190304003539 dimerization interface [polypeptide binding]; other site 190304003540 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 190304003541 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 190304003542 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 190304003543 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304003544 homodimer interface [polypeptide binding]; other site 190304003545 catalytic residue [active] 190304003546 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 190304003547 homotrimer interaction site [polypeptide binding]; other site 190304003548 putative active site [active] 190304003549 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 190304003550 Zn2+ binding site [ion binding]; other site 190304003551 Mg2+ binding site [ion binding]; other site 190304003552 Exoribonuclease R [Transcription]; Region: VacB; COG0557 190304003553 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 190304003554 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 190304003555 RNB domain; Region: RNB; pfam00773 190304003556 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 190304003557 RNA binding site [nucleotide binding]; other site 190304003558 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 190304003559 SmpB-tmRNA interface; other site 190304003560 Putative death-receptor fusion protein (DUF2428); Region: DUF2428; cl19897 190304003561 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 190304003562 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 190304003563 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 190304003564 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 190304003565 active site 190304003566 dimer interface [polypeptide binding]; other site 190304003567 motif 1; other site 190304003568 motif 2; other site 190304003569 motif 3; other site 190304003570 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 190304003571 anticodon binding site; other site 190304003572 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 190304003573 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 190304003574 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 190304003575 Walker A/P-loop; other site 190304003576 ATP binding site [chemical binding]; other site 190304003577 Q-loop/lid; other site 190304003578 ABC transporter signature motif; other site 190304003579 Walker B; other site 190304003580 D-loop; other site 190304003581 H-loop/switch region; other site 190304003582 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 190304003583 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 190304003584 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 190304003585 Walker A/P-loop; other site 190304003586 ATP binding site [chemical binding]; other site 190304003587 Q-loop/lid; other site 190304003588 ABC transporter signature motif; other site 190304003589 Walker B; other site 190304003590 D-loop; other site 190304003591 H-loop/switch region; other site 190304003592 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 190304003593 DNA polymerase sliding clamp subunit (PCNA homolog) [DNA replication, recombination, and repair]; Region: DnaN; COG0592 190304003594 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 190304003595 putative DNA binding surface [nucleotide binding]; other site 190304003596 dimer interface [polypeptide binding]; other site 190304003597 beta-clamp/clamp loader binding surface; other site 190304003598 beta-clamp/translesion DNA polymerase binding surface; other site 190304003599 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 190304003600 mechanosensitive channel MscS; Provisional; Region: PRK10334 190304003601 Mechanosensitive ion channel; Region: MS_channel; pfam00924 190304003602 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 190304003603 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 190304003604 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 190304003605 N-glycosylase/DNA lyase; Provisional; Region: PRK01229 190304003606 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl19066 190304003607 minor groove reading motif; other site 190304003608 helix-hairpin-helix signature motif; other site 190304003609 active site 190304003610 Predicted permeases [General function prediction only]; Region: COG0679 190304003611 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 190304003612 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 190304003613 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 190304003614 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 190304003615 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 190304003616 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304003617 homodimer interface [polypeptide binding]; other site 190304003618 catalytic residue [active] 190304003619 Uncharacterized conserved protein [Function unknown]; Region: COG4283 190304003620 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 190304003621 A subgroup of the 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_1; cd05710 190304003622 putative active site [active] 190304003623 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 190304003624 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 190304003625 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 190304003626 dimer interface [polypeptide binding]; other site 190304003627 active site 190304003628 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 190304003629 dimer interface [polypeptide binding]; other site 190304003630 active site 190304003631 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 190304003632 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 190304003633 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 190304003634 active site 190304003635 phosphorylation site [posttranslational modification] 190304003636 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 190304003637 active pocket/dimerization site; other site 190304003638 active site 190304003639 phosphorylation site [posttranslational modification] 190304003640 Initiator Replication protein; Region: Rep_3; pfam01051 190304003641 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 190304003642 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 190304003643 G1 box; other site 190304003644 putative GEF interaction site [polypeptide binding]; other site 190304003645 GTP/Mg2+ binding site [chemical binding]; other site 190304003646 Switch I region; other site 190304003647 G2 box; other site 190304003648 G3 box; other site 190304003649 Switch II region; other site 190304003650 G4 box; other site 190304003651 G5 box; other site 190304003652 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 190304003653 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 190304003654 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 190304003655 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 190304003656 RNA binding site [nucleotide binding]; other site 190304003657 active site 190304003658 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 190304003659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304003660 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from archaea and bacteria; Region: NTP-PPase_COG4997; cd11532 190304003661 metal binding site [ion binding]; metal-binding site 190304003662 CAAX protease self-immunity; Region: Abi; pfam02517 190304003663 KilA-N domain; Region: KilA-N; pfam04383 190304003664 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 190304003665 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 190304003666 active site 190304003667 SAM binding site [chemical binding]; other site 190304003668 homodimer interface [polypeptide binding]; other site 190304003669 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 190304003670 active site 190304003671 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 190304003672 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 190304003673 domain interfaces; other site 190304003674 active site 190304003675 Glutamyl-tRNA reductase [Coenzyme metabolism]; Region: HemA; COG0373 190304003676 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 190304003677 tRNA; other site 190304003678 putative tRNA binding site [nucleotide binding]; other site 190304003679 putative NADP binding site [chemical binding]; other site 190304003680 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 190304003681 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 190304003682 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 190304003683 active site 190304003684 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 190304003685 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 190304003686 active site 190304003687 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 190304003688 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 190304003689 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 190304003690 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 190304003691 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 190304003692 active site 190304003693 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 190304003694 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 190304003695 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 190304003696 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 190304003697 substrate binding site [chemical binding]; other site 190304003698 hinge regions; other site 190304003699 ADP binding site [chemical binding]; other site 190304003700 catalytic site [active] 190304003701 This conserved region includes the FMN-binding site of the NqrC protein as well as the NosR and NirI regulatory proteins; Region: FMN_bind; smart00900 190304003702 FMN-binding domain; Region: FMN_bind; pfam04205 190304003703 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 190304003704 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 190304003705 Coenzyme A binding pocket [chemical binding]; other site 190304003706 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 190304003707 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 190304003708 dimer interface [polypeptide binding]; other site 190304003709 conserved gate region; other site 190304003710 putative PBP binding loops; other site 190304003711 ABC-ATPase subunit interface; other site 190304003712 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 190304003713 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 190304003714 Walker A/P-loop; other site 190304003715 ATP binding site [chemical binding]; other site 190304003716 Q-loop/lid; other site 190304003717 ABC transporter signature motif; other site 190304003718 Walker B; other site 190304003719 D-loop; other site 190304003720 H-loop/switch region; other site 190304003721 NIL domain; Region: NIL; pfam09383 190304003722 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 190304003723 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 190304003724 putative active site [active] 190304003725 putative metal binding site [ion binding]; other site 190304003726 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 190304003727 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 190304003728 FMN binding site [chemical binding]; other site 190304003729 substrate binding site [chemical binding]; other site 190304003730 putative catalytic residue [active] 190304003731 Bacterial SH3 domain; Region: SH3_3; pfam08239 190304003732 Bacterial SH3 domain; Region: SH3_4; pfam06347 190304003733 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 190304003734 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 190304003735 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 190304003736 Metal binding protein TroA. These proteins have been shown to function as initial receptors in ABC transport of Zn2+ and possibly Fe3+ in many eubacterial species. The TroA proteins belong to the TroA superfamily of periplasmic metal binding proteins...; Region: TroA; cd01016 190304003737 metal binding site [ion binding]; metal-binding site 190304003738 intersubunit interface [polypeptide binding]; other site 190304003739 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 190304003740 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 190304003741 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 190304003742 ABC-ATPase subunit interface; other site 190304003743 dimer interface [polypeptide binding]; other site 190304003744 putative PBP binding regions; other site 190304003745 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 190304003746 ABC-ATPase subunit interface; other site 190304003747 dimer interface [polypeptide binding]; other site 190304003748 putative PBP binding regions; other site 190304003749 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 190304003750 AAA domain; Region: AAA_14; pfam13173 190304003751 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 190304003752 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 190304003753 putative deacylase active site [active] 190304003754 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 190304003755 EamA-like transporter family; Region: EamA; pfam00892 190304003756 EamA-like transporter family; Region: EamA; pfam00892 190304003757 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 190304003758 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 190304003759 ring oligomerisation interface [polypeptide binding]; other site 190304003760 ATP/Mg binding site [chemical binding]; other site 190304003761 stacking interactions; other site 190304003762 hinge regions; other site 190304003763 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 190304003764 oligomerisation interface [polypeptide binding]; other site 190304003765 mobile loop; other site 190304003766 roof hairpin; other site 190304003767 Uncharacterized conserved protein [Function unknown]; Region: COG1479 190304003768 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 190304003769 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 190304003770 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 190304003771 Predicted GTPases [General function prediction only]; Region: COG1162 190304003772 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 190304003773 RNA binding site [nucleotide binding]; other site 190304003774 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 190304003775 GTPase/Zn-binding domain interface [polypeptide binding]; other site 190304003776 GTP/Mg2+ binding site [chemical binding]; other site 190304003777 G4 box; other site 190304003778 G5 box; other site 190304003779 G1 box; other site 190304003780 Switch I region; other site 190304003781 G2 box; other site 190304003782 G3 box; other site 190304003783 Switch II region; other site 190304003784 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 190304003785 substrate binding site [chemical binding]; other site 190304003786 hexamer interface [polypeptide binding]; other site 190304003787 metal binding site [ion binding]; metal-binding site 190304003788 dimerization interface [polypeptide binding]; other site 190304003789 putative DNA binding site [nucleotide binding]; other site 190304003790 Transcriptional regulators [Transcription]; Region: MarR; COG1846 190304003791 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 190304003792 putative Zn2+ binding site [ion binding]; other site 190304003793 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 190304003794 Domain of unknown function (DUF814); Region: DUF814; pfam05670 190304003795 Hydrogenase expression/synthesis hypA family; Region: HypA; cl19201 190304003796 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 190304003797 cubane metal cluster [ion binding]; other site 190304003798 hybrid metal cluster; other site 190304003799 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 190304003800 Na binding site [ion binding]; other site 190304003801 Protein of unknown function (DUF997); Region: DUF997; pfam06196 190304003802 lysyl-tRNA synthetase, archaeal and spirochete; Region: lysS_arch; TIGR00467 190304003803 Restriction endonuclease EcoRV; Region: Endonuc-EcoRV; pfam09233 190304003804 YadA-like C-terminal region; Region: YadA_anchor; pfam03895 190304003805 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 190304003806 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 190304003807 FMN binding site [chemical binding]; other site 190304003808 active site 190304003809 catalytic residues [active] 190304003810 substrate binding site [chemical binding]; other site 190304003811 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 190304003812 MutS domain I; Region: MutS_I; pfam01624 190304003813 MutS domain II; Region: MutS_II; pfam05188 190304003814 MutS domain III; Region: MutS_III; pfam05192 190304003815 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 190304003816 Walker A/P-loop; other site 190304003817 ATP binding site [chemical binding]; other site 190304003818 Q-loop/lid; other site 190304003819 ABC transporter signature motif; other site 190304003820 Walker B; other site 190304003821 D-loop; other site 190304003822 H-loop/switch region; other site 190304003823 OstA-like protein; Region: OstA; cl00844 190304003824 Lipopolysaccharide-assembly, LptC-related; Region: LptC; cl01200 190304003825 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 190304003826 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 190304003827 Walker A/P-loop; other site 190304003828 ATP binding site [chemical binding]; other site 190304003829 Q-loop/lid; other site 190304003830 ABC transporter signature motif; other site 190304003831 Walker B; other site 190304003832 D-loop; other site 190304003833 H-loop/switch region; other site 190304003834 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 190304003835 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 190304003836 motif 1; other site 190304003837 active site 190304003838 motif 2; other site 190304003839 motif 3; other site 190304003840 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 190304003841 DHHA1 domain; Region: DHHA1; pfam02272 190304003842 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 190304003843 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 190304003844 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 190304003845 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 190304003846 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 190304003847 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 190304003848 Protein export membrane protein; Region: SecD_SecF; pfam02355 190304003849 Methyltransferase domain; Region: Methyltransf_31; pfam13847 190304003850 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 190304003851 S-adenosylmethionine binding site [chemical binding]; other site 190304003852 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 190304003853 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 190304003854 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 190304003855 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 190304003856 DNA polymerase I; Provisional; Region: PRK05755 190304003857 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 190304003858 active site 190304003859 metal binding site 1 [ion binding]; metal-binding site 190304003860 putative 5' ssDNA interaction site; other site 190304003861 metal binding site 3; metal-binding site 190304003862 metal binding site 2 [ion binding]; metal-binding site 190304003863 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 190304003864 putative DNA binding site [nucleotide binding]; other site 190304003865 putative metal binding site [ion binding]; other site 190304003866 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 190304003867 substrate binding site [chemical binding]; other site 190304003868 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 190304003869 active site 190304003870 DNA binding site [nucleotide binding] 190304003871 catalytic site [active] 190304003872 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 190304003873 LAGLIDADG-like domain; Region: LAGLIDADG_3; cl08299 190304003874 WhiA C-terminal HTH domain; Region: HTH_WhiA; pfam02650 190304003875 FAD synthase [Coenzyme metabolism]; Region: RibF; COG0196 190304003876 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 190304003877 active site 190304003878 Riboflavin kinase; Region: Flavokinase; smart00904 190304003879 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 190304003880 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 190304003881 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 190304003882 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 190304003883 Flavoprotein; Region: Flavoprotein; cl19190 190304003884 DNA / pantothenate metabolizm flavoprotein; Region: DFP; pfam04127 190304003885 Chromate transporter; Region: Chromate_transp; pfam02417 190304003886 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 190304003887 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 190304003888 active site 190304003889 FMN binding site [chemical binding]; other site 190304003890 substrate binding site [chemical binding]; other site 190304003891 putative catalytic residue [active] 190304003892 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 190304003893 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304003894 MORN repeat; Region: MORN; cl14787 190304003895 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 190304003896 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 190304003897 RNA binding surface [nucleotide binding]; other site 190304003898 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 190304003899 active site 190304003900 uracil binding [chemical binding]; other site 190304003901 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 190304003902 elongation factor P; Validated; Region: PRK00529 190304003903 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 190304003904 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 190304003905 RNA binding site [nucleotide binding]; other site 190304003906 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 190304003907 RNA binding site [nucleotide binding]; other site 190304003908 TIR domain; Region: TIR_2; pfam13676 190304003909 FOG: WD40 repeat [General function prediction only]; Region: COG2319 190304003910 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 190304003911 structural tetrad; other site 190304003912 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 190304003913 structural tetrad; other site 190304003914 FOG: WD40 repeat [General function prediction only]; Region: COG2319 190304003915 flavodoxin, long chain; Region: flav_long; TIGR01752 190304003916 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 190304003917 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 190304003918 putative ATP binding site [chemical binding]; other site 190304003919 putative substrate interface [chemical binding]; other site 190304003920 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 190304003921 Protein of unknown function (DUF4241); Region: DUF4241; pfam14025 190304003922 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 190304003923 catalytic core [active] 190304003924 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 190304003925 catalytic core [active] 190304003926 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; pfam05636 190304003927 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 190304003928 peptidase T-like protein; Region: PepT-like; TIGR01883 190304003929 metal binding site [ion binding]; metal-binding site 190304003930 dimer interface [polypeptide binding]; other site 190304003931 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 190304003932 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 190304003933 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 190304003934 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 190304003935 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 190304003936 trimer interface [polypeptide binding]; other site 190304003937 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 190304003938 trimer interface [polypeptide binding]; other site 190304003939 Coiled stalk of trimeric autotransporter adhesin; Region: YadA_stalk; pfam05662 190304003940 YadA-like C-terminal region; Region: YadA_anchor; pfam03895 190304003941 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 190304003942 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 190304003943 S-adenosylmethionine binding site [chemical binding]; other site 190304003944 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 190304003945 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304003946 MORN repeat; Region: MORN; cl14787 190304003947 Methenyl tetrahydrofolate cyclohydrolase [Amino acid transport and metabolism]; Region: COG3404 190304003948 imidazolonepropionase; Validated; Region: PRK09356 190304003949 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 190304003950 active site 190304003951 Glutamate formiminotransferase [Amino acid transport and metabolism]; Region: COG3643 190304003952 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 190304003953 Formiminotransferase domain; Region: FTCD; pfam02971 190304003954 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 190304003955 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 190304003956 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 190304003957 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 190304003958 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cd09708 190304003959 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 190304003960 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 190304003961 7TM-HD extracellular; Region: 7TMR-HDED; pfam07697 190304003962 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 190304003963 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 190304003964 Zn2+ binding site [ion binding]; other site 190304003965 Mg2+ binding site [ion binding]; other site 190304003966 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 190304003967 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 190304003968 dimer interface [polypeptide binding]; other site 190304003969 ADP-ribose binding site [chemical binding]; other site 190304003970 active site 190304003971 nudix motif; other site 190304003972 metal binding site [ion binding]; metal-binding site 190304003973 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 190304003974 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 190304003975 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 190304003976 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 190304003977 cytoplasmic asparaginase I; Provisional; Region: ansA; PRK09461 190304003978 active site 190304003979 homodimer interface [polypeptide binding]; other site 190304003980 Putative lysophospholipase; Region: Hydrolase_4; cl19140 190304003981 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 190304003982 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 190304003983 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 190304003984 GatB domain; Region: GatB_Yqey; smart00845 190304003985 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 190304003986 Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit [Translation, ribosomal structure and biogenesis]; Region: GatC; COG0721 190304003987 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 190304003988 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 190304003989 RNA binding surface [nucleotide binding]; other site 190304003990 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 190304003991 active site 190304003992 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 190304003993 rod shape-determining protein MreB; Provisional; Region: PRK13930 190304003994 MreB and similar proteins; Region: MreB_like; cd10225 190304003995 nucleotide binding site [chemical binding]; other site 190304003996 Mg binding site [ion binding]; other site 190304003997 putative protofilament interaction site [polypeptide binding]; other site 190304003998 RodZ interaction site [polypeptide binding]; other site 190304003999 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 190304004000 active site 190304004001 dimer interface [polypeptide binding]; other site 190304004002 Chromatin assembly factor 1 complex p150 subunit, N-terminal; Region: CAF-1_p150; pfam11600 190304004003 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 190304004004 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 190304004005 nucleotide binding site [chemical binding]; other site 190304004006 Type III pantothenate kinase; Region: Pan_kinase; cl17198 190304004007 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 190304004008 putative DNA binding site [nucleotide binding]; other site 190304004009 putative Zn2+ binding site [ion binding]; other site 190304004010 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 190304004011 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 190304004012 Ligand Binding Site [chemical binding]; other site 190304004013 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 190304004014 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 190304004015 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 190304004016 putative binding site residues; other site 190304004017 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 190304004018 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 190304004019 N-terminal plug; other site 190304004020 ligand-binding site [chemical binding]; other site 190304004021 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 190304004022 ABC-ATPase subunit interface; other site 190304004023 dimer interface [polypeptide binding]; other site 190304004024 putative PBP binding regions; other site 190304004025 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 190304004026 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 190304004027 Walker A/P-loop; other site 190304004028 ATP binding site [chemical binding]; other site 190304004029 Q-loop/lid; other site 190304004030 ABC transporter signature motif; other site 190304004031 Walker B; other site 190304004032 D-loop; other site 190304004033 H-loop/switch region; other site 190304004034 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 190304004035 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 190304004036 FeS/SAM binding site; other site 190304004037 Tim44-like domain; Region: Tim44; cl09208 190304004038 Flavodoxin domain; Region: Flavodoxin_3; pfam12641 190304004039 DNA-damage-inducible protein J [DNA replication, recombination, and repair]; Region: RelB; COG3077 190304004040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304004041 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 190304004042 active site 190304004043 metal binding site [ion binding]; metal-binding site 190304004044 asparagine synthetase AsnA; Provisional; Region: PRK05425 190304004045 motif 1; other site 190304004046 dimer interface [polypeptide binding]; other site 190304004047 active site 190304004048 motif 2; other site 190304004049 motif 3; other site 190304004050 GTP-binding protein LepA; Provisional; Region: PRK05433 190304004051 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 190304004052 G1 box; other site 190304004053 putative GEF interaction site [polypeptide binding]; other site 190304004054 GTP/Mg2+ binding site [chemical binding]; other site 190304004055 Switch I region; other site 190304004056 G2 box; other site 190304004057 G3 box; other site 190304004058 Switch II region; other site 190304004059 G4 box; other site 190304004060 G5 box; other site 190304004061 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 190304004062 Elongation Factor G, domain II; Region: EFG_II; pfam14492 190304004063 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 190304004064 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 190304004065 Methyltransferase TRM13; Region: TRM13; pfam05206 190304004066 Methyltransferase domain; Region: Methyltransf_31; pfam13847 190304004067 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 190304004068 S-adenosylmethionine binding site [chemical binding]; other site 190304004069 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 190304004070 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 190304004071 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 190304004072 Uncharacterized conserved protein [Function unknown]; Region: COG3610 190304004073 Uncharacterized conserved protein [Function unknown]; Region: COG2966 190304004074 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 190304004075 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 190304004076 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 190304004077 S-adenosylmethionine binding site [chemical binding]; other site 190304004078 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 190304004079 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 190304004080 FAD binding site [chemical binding]; other site 190304004081 homotetramer interface [polypeptide binding]; other site 190304004082 substrate binding pocket [chemical binding]; other site 190304004083 catalytic base [active] 190304004084 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 190304004085 Ligand binding site [chemical binding]; other site 190304004086 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 190304004087 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 190304004088 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 190304004089 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 190304004090 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cl17393 190304004091 DNA-binding interface [nucleotide binding]; DNA binding site 190304004092 Transposase; Region: HTH_Tnp_1; cl17663 190304004093 Integrase core domain; Region: rve; pfam00665 190304004094 Integrase core domain; Region: rve_2; pfam13333 190304004095 Uncharacterized conserved protein [Function unknown]; Region: COG1284 190304004096 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 190304004097 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 190304004098 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 190304004099 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 190304004100 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 190304004101 nucleotide binding site [chemical binding]; other site 190304004102 Aromatic amino acid lyase; Region: Lyase_aromatic; pfam00221 190304004103 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 190304004104 active sites [active] 190304004105 tetramer interface [polypeptide binding]; other site 190304004106 urocanate hydratase; Provisional; Region: PRK05414 190304004107 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 190304004108 HTH domain; Region: HTH_11; pfam08279 190304004109 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 190304004110 FOG: CBS domain [General function prediction only]; Region: COG0517 190304004111 pyruvate phosphate dikinase; Provisional; Region: PRK09279 190304004112 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 190304004113 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 190304004114 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 190304004115 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 190304004116 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 190304004117 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 190304004118 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 190304004119 active site 190304004120 catalytic site [active] 190304004121 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 190304004122 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 190304004123 substrate binding pocket [chemical binding]; other site 190304004124 membrane-bound complex binding site; other site 190304004125 hinge residues; other site 190304004126 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 190304004127 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 190304004128 Walker A/P-loop; other site 190304004129 ATP binding site [chemical binding]; other site 190304004130 Q-loop/lid; other site 190304004131 ABC transporter signature motif; other site 190304004132 Walker B; other site 190304004133 D-loop; other site 190304004134 H-loop/switch region; other site 190304004135 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 190304004136 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 190304004137 dimer interface [polypeptide binding]; other site 190304004138 conserved gate region; other site 190304004139 putative PBP binding loops; other site 190304004140 ABC-ATPase subunit interface; other site 190304004141 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional; Region: PRK14018 190304004142 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 190304004143 catalytic residues [active] 190304004144 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 190304004145 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 190304004146 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 190304004147 A new structural DNA glycosylase; Region: AlkD_like; cd06561 190304004148 active site 190304004149 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 190304004150 Sporulation protein and related proteins [Cell division and chromosome partitioning]; Region: SpoIID; COG2385 190304004151 Stage II sporulation protein; Region: SpoIID; pfam08486 190304004152 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 190304004153 Ligand binding site; other site 190304004154 oligomer interface; other site 190304004155 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 190304004156 catalytic core [active] 190304004157 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 190304004158 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 190304004159 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 190304004160 tetramer interface [polypeptide binding]; other site 190304004161 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304004162 catalytic residue [active] 190304004163 Domain of unknown function (DUF4299); Region: DUF4299; pfam14132 190304004164 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 190304004165 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 190304004166 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 190304004167 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 190304004168 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 190304004169 Coenzyme A transferase; Region: CoA_trans; smart00882 190304004170 Coenzyme A transferase; Region: CoA_trans; cl17247 190304004171 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 190304004172 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 190304004173 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 190304004174 dimer interaction site [polypeptide binding]; other site 190304004175 substrate-binding tunnel; other site 190304004176 active site 190304004177 catalytic site [active] 190304004178 substrate binding site [chemical binding]; other site 190304004179 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 190304004180 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 190304004181 H-loop/switch region; other site 190304004182 histone-like DNA-binding protein HU; Region: HU; cd13831 190304004183 dimer interface [polypeptide binding]; other site 190304004184 DNA binding site [nucleotide binding] 190304004185 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 190304004186 TPR motif; other site 190304004187 binding surface 190304004188 TPR repeat; Region: TPR_11; pfam13414 190304004189 TPR repeat; Region: TPR_11; pfam13414 190304004190 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 190304004191 TPR motif; other site 190304004192 binding surface 190304004193 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 190304004194 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 190304004195 binding surface 190304004196 TPR motif; other site 190304004197 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 190304004198 TPR motif; other site 190304004199 binding surface 190304004200 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 190304004201 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 190304004202 TPR motif; other site 190304004203 binding surface 190304004204 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 190304004205 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 190304004206 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 190304004207 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 190304004208 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 190304004209 ADP binding site [chemical binding]; other site 190304004210 magnesium binding site [ion binding]; other site 190304004211 putative shikimate binding site; other site 190304004212 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 190304004213 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 190304004214 HflX GTPase family; Region: HflX; cd01878 190304004215 G1 box; other site 190304004216 GTP/Mg2+ binding site [chemical binding]; other site 190304004217 Switch I region; other site 190304004218 G2 box; other site 190304004219 G3 box; other site 190304004220 Switch II region; other site 190304004221 G4 box; other site 190304004222 G5 box; other site 190304004223 WYL domain; Region: WYL; pfam13280 190304004224 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 190304004225 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 190304004226 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 190304004227 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 190304004228 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 190304004229 HlyD family secretion protein; Region: HlyD_3; pfam13437 190304004230 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 190304004231 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 190304004232 Walker A/P-loop; other site 190304004233 ATP binding site [chemical binding]; other site 190304004234 Q-loop/lid; other site 190304004235 ABC transporter signature motif; other site 190304004236 Walker B; other site 190304004237 D-loop; other site 190304004238 H-loop/switch region; other site 190304004239 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 190304004240 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 190304004241 FtsX-like permease family; Region: FtsX; pfam02687 190304004242 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 190304004243 Divergent AAA domain; Region: AAA_4; pfam04326 190304004244 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 190304004245 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 190304004246 putative DNA binding site [nucleotide binding]; other site 190304004247 putative Zn2+ binding site [ion binding]; other site 190304004248 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 190304004249 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 190304004250 SEN1 N terminal; Region: SEN1_N; pfam12726 190304004251 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 190304004252 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 190304004253 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 190304004254 active site 190304004255 DNA binding site [nucleotide binding] 190304004256 Int/Topo IB signature motif; other site 190304004257 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 190304004258 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cl17393 190304004259 DNA-binding interface [nucleotide binding]; DNA binding site 190304004260 Transposase; Region: HTH_Tnp_1; cl17663 190304004261 Integrase core domain; Region: rve; pfam00665 190304004262 Integrase core domain; Region: rve_2; pfam13333 190304004263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304004264 Tetratricopeptide repeat; Region: TPR_12; pfam13424 190304004265 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 190304004266 binding surface 190304004267 TPR motif; other site 190304004268 Tetratricopeptide repeat; Region: TPR_12; pfam13424 190304004269 Domain of unknown function (DUF4037); Region: DUF4037; pfam13228 190304004270 Protein of unknown function (DUF4125); Region: DUF4125; pfam13526 190304004271 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 190304004272 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 190304004273 substrate-cofactor binding pocket; other site 190304004274 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304004275 catalytic residue [active] 190304004276 Protein of unknown function (DUF452); Region: DUF452; cl01062 190304004277 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 190304004278 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 190304004279 S-adenosylmethionine binding site [chemical binding]; other site 190304004280 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 190304004281 glycogen synthase; Provisional; Region: glgA; PRK00654 190304004282 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 190304004283 ADP-binding pocket [chemical binding]; other site 190304004284 homodimer interface [polypeptide binding]; other site 190304004285 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 190304004286 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 190304004287 ligand binding site; other site 190304004288 oligomer interface; other site 190304004289 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 190304004290 dimer interface [polypeptide binding]; other site 190304004291 N-terminal domain interface [polypeptide binding]; other site 190304004292 sulfate 1 binding site; other site 190304004293 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 190304004294 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 190304004295 ligand binding site; other site 190304004296 oligomer interface; other site 190304004297 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 190304004298 dimer interface [polypeptide binding]; other site 190304004299 N-terminal domain interface [polypeptide binding]; other site 190304004300 sulfate 1 binding site; other site 190304004301 glycogen branching enzyme; Provisional; Region: PRK12313 190304004302 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 190304004303 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 190304004304 active site 190304004305 catalytic site [active] 190304004306 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 190304004307 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 190304004308 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 190304004309 homodimer interface [polypeptide binding]; other site 190304004310 active site pocket [active] 190304004311 4-alpha-glucanotransferase; Provisional; Region: PRK14508 190304004312 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 190304004313 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 190304004314 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 190304004315 acyl-activating enzyme (AAE) consensus motif; other site 190304004316 putative AMP binding site [chemical binding]; other site 190304004317 putative active site [active] 190304004318 putative CoA binding site [chemical binding]; other site 190304004319 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 190304004320 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 190304004321 putative acyl-acceptor binding pocket; other site 190304004322 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 190304004323 Ligand Binding Site [chemical binding]; other site 190304004324 TIGR00269 family protein; Region: TIGR00269 190304004325 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 190304004326 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 190304004327 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 190304004328 active site 190304004329 motif I; other site 190304004330 motif II; other site 190304004331 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 190304004332 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 190304004333 active site residue [active] 190304004334 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 190304004335 active site 190304004336 dimer interface [polypeptide binding]; other site 190304004337 metal binding site [ion binding]; metal-binding site 190304004338 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 190304004339 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl19483 190304004340 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 190304004341 active site 190304004342 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 190304004343 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 190304004344 tandem repeat interface [polypeptide binding]; other site 190304004345 oligomer interface [polypeptide binding]; other site 190304004346 active site residues [active] 190304004347 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 190304004348 dimer interface [polypeptide binding]; other site 190304004349 active site 190304004350 ADP-ribose binding site [chemical binding]; other site 190304004351 nudix motif; other site 190304004352 metal binding site [ion binding]; metal-binding site 190304004353 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 190304004354 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 190304004355 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 190304004356 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 190304004357 Na binding site [ion binding]; other site 190304004358 Transcriptional regulators [Transcription]; Region: GntR; COG1802 190304004359 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 190304004360 DNA-binding site [nucleotide binding]; DNA binding site 190304004361 FCD domain; Region: FCD; pfam07729 190304004362 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 190304004363 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 190304004364 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 190304004365 Walker A/P-loop; other site 190304004366 ATP binding site [chemical binding]; other site 190304004367 Q-loop/lid; other site 190304004368 ABC transporter signature motif; other site 190304004369 Walker B; other site 190304004370 D-loop; other site 190304004371 H-loop/switch region; other site 190304004372 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG3694 190304004373 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 190304004374 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 190304004375 Walker A/P-loop; other site 190304004376 ATP binding site [chemical binding]; other site 190304004377 Q-loop/lid; other site 190304004378 ABC transporter signature motif; other site 190304004379 Walker B; other site 190304004380 D-loop; other site 190304004381 H-loop/switch region; other site 190304004382 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 190304004383 ABC-ATPase subunit interface; other site 190304004384 dimer interface [polypeptide binding]; other site 190304004385 putative PBP binding regions; other site 190304004386 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 190304004387 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 190304004388 putative ligand binding residues [chemical binding]; other site 190304004389 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 190304004390 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 190304004391 N-terminal plug; other site 190304004392 ligand-binding site [chemical binding]; other site 190304004393 oligoendopeptidase F; Region: pepF; TIGR00181 190304004394 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 190304004395 active site 190304004396 Zn binding site [ion binding]; other site 190304004397 Sulfate transporter family; Region: Sulfate_transp; cl19250 190304004398 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 190304004399 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 190304004400 active site 1 [active] 190304004401 active site 2 [active] 190304004402 Thiamine pyrophosphokinase; Region: TPK; cd07995 190304004403 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 190304004404 active site 190304004405 dimerization interface [polypeptide binding]; other site 190304004406 thiamine binding site [chemical binding]; other site 190304004407 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 190304004408 putative active site [active] 190304004409 putative catalytic site [active] 190304004410 putative Mg binding site IVb [ion binding]; other site 190304004411 putative phosphate binding site [ion binding]; other site 190304004412 putative DNA binding site [nucleotide binding]; other site 190304004413 putative Mg binding site IVa [ion binding]; other site 190304004414 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 190304004415 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 190304004416 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 190304004417 motif II; other site 190304004418 Predicted transcriptional regulator [Transcription]; Region: COG1959 190304004419 Rrf2 family protein; Region: rrf2_super; TIGR00738 190304004420 YcxB-like protein; Region: YcxB; pfam14317 190304004421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 190304004422 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 190304004423 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 190304004424 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 190304004425 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 190304004426 classical (c) SDRs; Region: SDR_c; cd05233 190304004427 NAD(P) binding site [chemical binding]; other site 190304004428 active site 190304004429 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 190304004430 Uracil-DNA glycosylase [DNA replication, recombination, and repair]; Region: COG1573 190304004431 ligand binding site [chemical binding]; other site 190304004432 active site 190304004433 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 190304004434 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 190304004435 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 190304004436 putative active site [active] 190304004437 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 190304004438 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 190304004439 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 190304004440 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 190304004441 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 190304004442 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 190304004443 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 190304004444 S-adenosylmethionine binding site [chemical binding]; other site 190304004445 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 190304004446 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 190304004447 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 190304004448 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 190304004449 MPN+ (JAMM) motif; other site 190304004450 Zinc-binding site [ion binding]; other site 190304004451 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 190304004452 putative dimer interface [polypeptide binding]; other site 190304004453 active site pocket [active] 190304004454 putative cataytic base [active] 190304004455 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 190304004456 catalytic core [active] 190304004457 cobalamin synthase; Reviewed; Region: cobS; PRK00235 190304004458 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 190304004459 homotrimer interface [polypeptide binding]; other site 190304004460 Walker A motif; other site 190304004461 GTP binding site [chemical binding]; other site 190304004462 Walker B motif; other site 190304004463 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 190304004464 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 190304004465 HPr interaction site; other site 190304004466 glycerol kinase (GK) interaction site [polypeptide binding]; other site 190304004467 active site 190304004468 phosphorylation site [posttranslational modification] 190304004469 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 190304004470 DNA polymerase III, delta subunit; Region: holA; TIGR01128 190304004471 Peptidase family M48; Region: Peptidase_M48; cl12018 190304004472 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 190304004473 Phosphotransferase enzyme family; Region: APH; pfam01636 190304004474 putative active site [active] 190304004475 putative substrate binding site [chemical binding]; other site 190304004476 ATP binding site [chemical binding]; other site 190304004477 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 190304004478 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 190304004479 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 190304004480 putative active site [active] 190304004481 catalytic site [active] 190304004482 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 190304004483 putative active site [active] 190304004484 catalytic site [active] 190304004485 SIR2-like domain; Region: SIR2_2; pfam13289 190304004486 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 190304004487 synthetase active site [active] 190304004488 NTP binding site [chemical binding]; other site 190304004489 metal binding site [ion binding]; metal-binding site 190304004490 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 190304004491 Glycoprotease family; Region: Peptidase_M22; pfam00814 190304004492 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 190304004493 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 190304004494 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 190304004495 active site 190304004496 nucleotide binding site [chemical binding]; other site 190304004497 HIGH motif; other site 190304004498 KMSKS motif; other site 190304004499 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 190304004500 nudix motif; other site 190304004501 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 190304004502 substrate binding site [chemical binding]; other site 190304004503 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 190304004504 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 190304004505 hinge; other site 190304004506 active site 190304004507 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 190304004508 Tetramer interface [polypeptide binding]; other site 190304004509 active site 190304004510 FMN-binding site [chemical binding]; other site 190304004511 poly-gamma-glutamate system protein; Region: gamma_Glu_sys; TIGR04332 190304004512 poly-gamma-glutamate biosynthesis protein PgsC/CapC; Region: poly_gGlu_PgsC; TIGR04011 190304004513 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 190304004514 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 190304004515 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 190304004516 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 190304004517 active site 190304004518 Zn binding site [ion binding]; other site 190304004519 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 190304004520 DctM-like transporters; Region: DctM; pfam06808 190304004521 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 190304004522 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 190304004523 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 190304004524 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 190304004525 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 190304004526 ATP binding site [chemical binding]; other site 190304004527 Mg2+ binding site [ion binding]; other site 190304004528 G-X-G motif; other site 190304004529 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 190304004530 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 190304004531 active site 190304004532 phosphorylation site [posttranslational modification] 190304004533 intermolecular recognition site; other site 190304004534 dimerization interface [polypeptide binding]; other site 190304004535 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 190304004536 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 190304004537 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 190304004538 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 190304004539 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 190304004540 active site 190304004541 Protein of unknown function DUF45; Region: DUF45; pfam01863 190304004542 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 190304004543 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 190304004544 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 190304004545 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 190304004546 Part of AAA domain; Region: AAA_19; pfam13245 190304004547 AAA domain; Region: AAA_12; pfam13087 190304004548 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 190304004549 putative active site [active] 190304004550 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 190304004551 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 190304004552 active site 190304004553 SAM binding site [chemical binding]; other site 190304004554 homodimer interface [polypeptide binding]; other site 190304004555 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 190304004556 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 190304004557 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 190304004558 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 190304004559 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 190304004560 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]; Region: COG4277 190304004561 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 190304004562 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl19066 190304004563 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 190304004564 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 190304004565 active site 190304004566 SAM binding site [chemical binding]; other site 190304004567 homodimer interface [polypeptide binding]; other site 190304004568 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 190304004569 active site 190304004570 SAM binding site [chemical binding]; other site 190304004571 homodimer interface [polypeptide binding]; other site 190304004572 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 190304004573 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_1; cd10446 190304004574 GIY-YIG motif/motif A; other site 190304004575 putative active site [active] 190304004576 putative metal binding site [ion binding]; other site 190304004577 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 190304004578 S-adenosylmethionine binding site [chemical binding]; other site 190304004579 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 190304004580 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 190304004581 NAD binding site [chemical binding]; other site 190304004582 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 190304004583 active site 190304004584 putative homodimer interface [polypeptide binding]; other site 190304004585 SAM binding site [chemical binding]; other site 190304004586 Cobalamin biosynthesis protein CbiD [Coenzyme metabolism]; Region: CbiD; COG1903 190304004587 Vacuolating cyotoxin; Region: VacA; pfam02691 190304004588 Precorrin-8X methylmutase; Region: CbiC; pfam02570 190304004589 Fic family protein [Function unknown]; Region: COG3177 190304004590 Fic/DOC family; Region: Fic; pfam02661 190304004591 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 190304004592 Cobyrinic acid a,c-diamide synthase [Coenzyme metabolism]; Region: CobB; COG1797 190304004593 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 190304004594 catalytic triad [active] 190304004595 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 190304004596 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 190304004597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304004598 homodimer interface [polypeptide binding]; other site 190304004599 catalytic residue [active] 190304004600 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 190304004601 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 190304004602 Domain of unknown function (DUF4299); Region: DUF4299; pfam14132 190304004603 cobyric acid synthase; Provisional; Region: PRK00784 190304004604 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 190304004605 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 190304004606 catalytic triad [active] 190304004607 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 190304004608 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 190304004609 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 190304004610 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 190304004611 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 190304004612 ATP-grasp domain; Region: ATP-grasp_4; cl17255 190304004613 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 190304004614 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 190304004615 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 190304004616 purine monophosphate binding site [chemical binding]; other site 190304004617 dimer interface [polypeptide binding]; other site 190304004618 putative catalytic residues [active] 190304004619 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 190304004620 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 190304004621 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 190304004622 active site 190304004623 substrate binding site [chemical binding]; other site 190304004624 cosubstrate binding site; other site 190304004625 catalytic site [active] 190304004626 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 190304004627 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 190304004628 dimerization interface [polypeptide binding]; other site 190304004629 putative ATP binding site [chemical binding]; other site 190304004630 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 190304004631 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 190304004632 tetramer interface [polypeptide binding]; other site 190304004633 active site 190304004634 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 190304004635 active site 190304004636 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 190304004637 ATP binding site [chemical binding]; other site 190304004638 active site 190304004639 substrate binding site [chemical binding]; other site 190304004640 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 190304004641 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 190304004642 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 190304004643 dimerization interface [polypeptide binding]; other site 190304004644 ATP binding site [chemical binding]; other site 190304004645 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 190304004646 dimerization interface [polypeptide binding]; other site 190304004647 ATP binding site [chemical binding]; other site 190304004648 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 190304004649 putative active site [active] 190304004650 catalytic triad [active] 190304004651 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 190304004652 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 190304004653 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 190304004654 putative active site [active] 190304004655 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 190304004656 Cation transport protein; Region: TrkH; cl17365 190304004657 Predicted integral membrane protein [Function unknown]; Region: COG5522 190304004658 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 190304004659 Ribonuclease H-like superfamily, including RNase H, HI, HII, HIII, and RNase-like domain IV of spliceosomal protein Prp8; Region: RNase_H_like; cl14782 190304004660 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 190304004661 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 190304004662 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 190304004663 putative oligomer interface [polypeptide binding]; other site 190304004664 putative active site [active] 190304004665 metal binding site [ion binding]; metal-binding site 190304004666 biotin synthase; Region: bioB; TIGR00433 190304004667 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 190304004668 FeS/SAM binding site; other site 190304004669 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 190304004670 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 190304004671 AAA domain; Region: AAA_26; pfam13500 190304004672 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 190304004673 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 190304004674 inhibitor-cofactor binding pocket; inhibition site 190304004675 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304004676 catalytic residue [active] 190304004677 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 190304004678 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 190304004679 WHG domain; Region: WHG; pfam13305 190304004680 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 190304004681 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 190304004682 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 190304004683 Coenzyme A binding pocket [chemical binding]; other site 190304004684 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 190304004685 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 190304004686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 190304004687 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 190304004688 DHH family; Region: DHH; pfam01368 190304004689 DHHA1 domain; Region: DHHA1; pfam02272 190304004690 Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]; Region: HprK; COG1493 190304004691 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 190304004692 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 190304004693 Hpr binding site; other site 190304004694 active site 190304004695 homohexamer subunit interaction site [polypeptide binding]; other site 190304004696 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 190304004697 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 190304004698 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 190304004699 Hpr binding site; other site 190304004700 active site 190304004701 homohexamer subunit interaction site [polypeptide binding]; other site 190304004702 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 190304004703 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 190304004704 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 190304004705 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 190304004706 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 190304004707 putative acyl-acceptor binding pocket; other site 190304004708 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 190304004709 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 190304004710 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 190304004711 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 190304004712 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 190304004713 substrate binding site [chemical binding]; other site 190304004714 oxyanion hole (OAH) forming residues; other site 190304004715 trimer interface [polypeptide binding]; other site 190304004716 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 190304004717 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 190304004718 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 190304004719 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 190304004720 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 190304004721 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 190304004722 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 190304004723 histone-like DNA-binding protein HU; Region: HU; cd13831 190304004724 dimer interface [polypeptide binding]; other site 190304004725 DNA binding site [nucleotide binding] 190304004726 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 190304004727 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 190304004728 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 190304004729 RNA binding surface [nucleotide binding]; other site 190304004730 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 190304004731 active site 190304004732 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 190304004733 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 190304004734 trimer interface [polypeptide binding]; other site 190304004735 active site 190304004736 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 190304004737 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 190304004738 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 190304004739 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 190304004740 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 190304004741 Colicin V production protein; Region: Colicin_V; pfam02674 190304004742 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 190304004743 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 190304004744 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 190304004745 putative RNA binding site [nucleotide binding]; other site 190304004746 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 190304004747 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 190304004748 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 190304004749 WHG domain; Region: WHG; pfam13305 190304004750 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 190304004751 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 190304004752 flavodoxin; Provisional; Region: PRK06242 190304004753 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 190304004754 EamA-like transporter family; Region: EamA; pfam00892 190304004755 EamA-like transporter family; Region: EamA; pfam00892 190304004756 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 190304004757 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 190304004758 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 190304004759 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 190304004760 Sterol carrier protein domain; Region: SCP2_2; pfam13530 190304004761 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 190304004762 S1 domain; Region: S1_2; pfam13509 190304004763 S1 domain; Region: S1_2; pfam13509 190304004764 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 190304004765 RNA binding site [nucleotide binding]; other site 190304004766 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 190304004767 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; cl00364 190304004768 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_3; cd07241 190304004769 putative metal binding site [ion binding]; other site 190304004770 Domain of unknown function (DUF3601); Region: DUF3601; pfam12208 190304004771 Domain of unknown function (DUF3601); Region: DUF3601; pfam12208 190304004772 cysteine synthase; Region: PLN02565 190304004773 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 190304004774 dimer interface [polypeptide binding]; other site 190304004775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304004776 catalytic residue [active] 190304004777 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 190304004778 Coenzyme A binding pocket [chemical binding]; other site 190304004779 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 190304004780 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 190304004781 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4884 190304004782 Putative lysophospholipase; Region: Hydrolase_4; cl19140 190304004783 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 190304004784 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 190304004785 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 190304004786 metal binding site [ion binding]; metal-binding site 190304004787 dimer interface [polypeptide binding]; other site 190304004788 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 190304004789 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 190304004790 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 190304004791 generic binding surface II; other site 190304004792 generic binding surface I; other site 190304004793 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 190304004794 binding surface 190304004795 TPR motif; other site 190304004796 TPR repeat; Region: TPR_11; pfam13414 190304004797 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 190304004798 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 190304004799 DNA topoisomerase I; Validated; Region: PRK06599 190304004800 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 190304004801 active site 190304004802 interdomain interaction site; other site 190304004803 putative metal-binding site [ion binding]; other site 190304004804 nucleotide binding site [chemical binding]; other site 190304004805 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 190304004806 domain I; other site 190304004807 DNA binding groove [nucleotide binding] 190304004808 phosphate binding site [ion binding]; other site 190304004809 domain II; other site 190304004810 domain III; other site 190304004811 nucleotide binding site [chemical binding]; other site 190304004812 catalytic site [active] 190304004813 domain IV; other site 190304004814 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 190304004815 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 190304004816 Glucose inhibited division protein A; Region: GIDA; pfam01134 190304004817 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 190304004818 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 190304004819 active site 190304004820 Int/Topo IB signature motif; other site 190304004821 DNA binding site [nucleotide binding] 190304004822 ribosome biogenesis GTPase YqeH; Region: GTPase_YqeH; TIGR03597 190304004823 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 190304004824 GTP/Mg2+ binding site [chemical binding]; other site 190304004825 G4 box; other site 190304004826 G5 box; other site 190304004827 G1 box; other site 190304004828 Switch I region; other site 190304004829 G2 box; other site 190304004830 G3 box; other site 190304004831 Switch II region; other site 190304004832 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 190304004833 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 190304004834 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 190304004835 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 190304004836 P loop; other site 190304004837 GTP binding site [chemical binding]; other site 190304004838 PGAP1-like protein; Region: PGAP1; pfam07819 190304004839 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 190304004840 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304004841 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 190304004842 Ferritin-like domain; Region: Ferritin; pfam00210 190304004843 dimerization interface [polypeptide binding]; other site 190304004844 DPS ferroxidase diiron center [ion binding]; other site 190304004845 ion pore; other site 190304004846 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 190304004847 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 190304004848 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 190304004849 Walker A/P-loop; other site 190304004850 ATP binding site [chemical binding]; other site 190304004851 Q-loop/lid; other site 190304004852 ABC transporter signature motif; other site 190304004853 Walker B; other site 190304004854 D-loop; other site 190304004855 H-loop/switch region; other site 190304004856 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 190304004857 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 190304004858 DJ-1 family protein; Region: not_thiJ; TIGR01383 190304004859 conserved cys residue [active] 190304004860 Predicted ATPases [General function prediction only]; Region: COG1106 190304004861 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 190304004862 Walker A/P-loop; other site 190304004863 ATP binding site [chemical binding]; other site 190304004864 AAA domain; Region: AAA_21; pfam13304 190304004865 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 190304004866 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 190304004867 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 190304004868 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 190304004869 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 190304004870 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 190304004871 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 190304004872 GIY-YIG motif/motif A; other site 190304004873 active site 190304004874 catalytic site [active] 190304004875 putative DNA binding site [nucleotide binding]; other site 190304004876 metal binding site [ion binding]; metal-binding site 190304004877 UvrB/uvrC motif; Region: UVR; pfam02151 190304004878 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 190304004879 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 190304004880 GAF domain; Region: GAF_3; pfam13492 190304004881 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 190304004882 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 190304004883 Predicted metal-dependent enzyme [General function prediction only]; Region: COG3872 190304004884 Predicted transcriptional regulator [Transcription]; Region: COG1959 190304004885 Rrf2 family protein; Region: rrf2_super; TIGR00738 190304004886 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 190304004887 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 190304004888 Ligand binding site; other site 190304004889 Putative Catalytic site; other site 190304004890 DXD motif; other site 190304004891 GtrA-like protein; Region: GtrA; pfam04138 190304004892 Ring-infected erythrocyte surface antigen; Provisional; Region: PTZ00341 190304004893 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 190304004894 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 190304004895 AAA domain; Region: AAA_14; pfam13173 190304004896 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 190304004897 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 190304004898 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 190304004899 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 190304004900 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 190304004901 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 190304004902 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 190304004903 Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]; Region: RuvA; COG0632 190304004904 RuvA N terminal domain; Region: RuvA_N; pfam01330 190304004905 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 190304004906 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 190304004907 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 190304004908 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 190304004909 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 190304004910 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 190304004911 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 190304004912 Coenzyme A binding pocket [chemical binding]; other site 190304004913 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_39; cd04699 190304004914 nudix motif; other site 190304004915 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 190304004916 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 190304004917 Walker A/P-loop; other site 190304004918 ATP binding site [chemical binding]; other site 190304004919 Q-loop/lid; other site 190304004920 ABC transporter signature motif; other site 190304004921 Walker B; other site 190304004922 D-loop; other site 190304004923 H-loop/switch region; other site 190304004924 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 190304004925 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 190304004926 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 190304004927 Walker A/P-loop; other site 190304004928 ATP binding site [chemical binding]; other site 190304004929 Q-loop/lid; other site 190304004930 ABC transporter signature motif; other site 190304004931 Walker B; other site 190304004932 D-loop; other site 190304004933 H-loop/switch region; other site 190304004934 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 190304004935 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 190304004936 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 190304004937 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 190304004938 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 190304004939 dimer interface [polypeptide binding]; other site 190304004940 conserved gate region; other site 190304004941 putative PBP binding loops; other site 190304004942 ABC-ATPase subunit interface; other site 190304004943 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 190304004944 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 190304004945 dimer interface [polypeptide binding]; other site 190304004946 conserved gate region; other site 190304004947 putative PBP binding loops; other site 190304004948 ABC-ATPase subunit interface; other site 190304004949 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 190304004950 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 190304004951 Peptidase E [Amino acid transport and metabolism]; Region: PepE; COG3340 190304004952 conserved cys residue [active] 190304004953 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 190304004954 Predicted ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG2868 190304004955 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 190304004956 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 190304004957 active site 190304004958 substrate-binding site [chemical binding]; other site 190304004959 metal-binding site [ion binding] 190304004960 ATP binding site [chemical binding]; other site 190304004961 Domain of unknown function (DUF1846); Region: DUF1846; pfam08903 190304004962 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 190304004963 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 190304004964 acyl-activating enzyme (AAE) consensus motif; other site 190304004965 AMP binding site [chemical binding]; other site 190304004966 active site 190304004967 CoA binding site [chemical binding]; other site 190304004968 Phosphopantetheine attachment site; Region: PP-binding; cl09936 190304004969 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 190304004970 putative acyl-acceptor binding pocket; other site 190304004971 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 190304004972 catalytic residues [active] 190304004973 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 190304004974 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 190304004975 ligand binding site [chemical binding]; other site 190304004976 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 190304004977 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 190304004978 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 190304004979 Coenzyme A binding pocket [chemical binding]; other site 190304004980 Predicted membrane protein [Function unknown]; Region: COG4907 190304004981 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 190304004982 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 190304004983 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 190304004984 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 190304004985 Walker A/P-loop; other site 190304004986 ATP binding site [chemical binding]; other site 190304004987 Q-loop/lid; other site 190304004988 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 190304004989 Uncharacterized protein conserved in archaea (DUF2193); Region: DUF2193; cl02034 190304004990 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 190304004991 Q-loop/lid; other site 190304004992 ABC transporter signature motif; other site 190304004993 Walker B; other site 190304004994 D-loop; other site 190304004995 H-loop/switch region; other site 190304004996 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 190304004997 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 190304004998 active site 190304004999 (T/H)XGH motif; other site 190304005000 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 190304005001 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 190304005002 active site 190304005003 dimer interface [polypeptide binding]; other site 190304005004 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 190304005005 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 190304005006 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 190304005007 substrate binding pocket [chemical binding]; other site 190304005008 membrane-bound complex binding site; other site 190304005009 hinge residues; other site 190304005010 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 190304005011 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 190304005012 Walker A/P-loop; other site 190304005013 ATP binding site [chemical binding]; other site 190304005014 Q-loop/lid; other site 190304005015 ABC transporter signature motif; other site 190304005016 Walker B; other site 190304005017 D-loop; other site 190304005018 H-loop/switch region; other site 190304005019 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 190304005020 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 190304005021 dimer interface [polypeptide binding]; other site 190304005022 conserved gate region; other site 190304005023 putative PBP binding loops; other site 190304005024 ABC-ATPase subunit interface; other site 190304005025 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 190304005026 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 190304005027 dimer interface [polypeptide binding]; other site 190304005028 conserved gate region; other site 190304005029 putative PBP binding loops; other site 190304005030 ABC-ATPase subunit interface; other site 190304005031 Predicted flavin-nucleotide-binding protein structurally related to pyridoxine 5'-phosphate oxidase [General function prediction only]; Region: COG3576 190304005032 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 190304005033 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 190304005034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 190304005035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 190304005036 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 190304005037 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 190304005038 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 190304005039 FeS/SAM binding site; other site 190304005040 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 190304005041 active site 190304005042 trimer interface [polypeptide binding]; other site 190304005043 allosteric site; other site 190304005044 active site lid [active] 190304005045 hexamer (dimer of trimers) interface [polypeptide binding]; other site 190304005046 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 190304005047 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 190304005048 active site 190304005049 Zn binding site [ion binding]; other site 190304005050 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 190304005051 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 190304005052 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 190304005053 Part of AAA domain; Region: AAA_19; pfam13245 190304005054 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 190304005055 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 190304005056 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 190304005057 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 190304005058 aspartate aminotransferase; Provisional; Region: PRK07568 190304005059 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 190304005060 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304005061 homodimer interface [polypeptide binding]; other site 190304005062 catalytic residue [active] 190304005063 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 190304005064 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 190304005065 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 190304005066 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 190304005067 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 190304005068 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 190304005069 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 190304005070 ATP binding site [chemical binding]; other site 190304005071 putative Mg++ binding site [ion binding]; other site 190304005072 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 190304005073 nucleotide binding region [chemical binding]; other site 190304005074 ATP-binding site [chemical binding]; other site 190304005075 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 190304005076 active site 190304005077 catalytic residues [active] 190304005078 metal binding site [ion binding]; metal-binding site 190304005079 Septum formation initiator; Region: DivIC; pfam04977 190304005080 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 190304005081 putative active site [active] 190304005082 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 190304005083 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 190304005084 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 190304005085 ATP binding site [chemical binding]; other site 190304005086 putative Mg++ binding site [ion binding]; other site 190304005087 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 190304005088 nucleotide binding region [chemical binding]; other site 190304005089 ATP-binding site [chemical binding]; other site 190304005090 Glutamate racemase [Cell envelope biogenesis, outer membrane]; Region: MurI; COG0796 190304005091 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 190304005092 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 190304005093 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 190304005094 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 190304005095 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 190304005096 nucleotide binding site [chemical binding]; other site 190304005097 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 190304005098 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 190304005099 ligand binding site [chemical binding]; other site 190304005100 calcium binding site [ion binding]; other site 190304005101 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 190304005102 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 190304005103 Walker A/P-loop; other site 190304005104 ATP binding site [chemical binding]; other site 190304005105 Q-loop/lid; other site 190304005106 ABC transporter signature motif; other site 190304005107 Walker B; other site 190304005108 D-loop; other site 190304005109 H-loop/switch region; other site 190304005110 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 190304005111 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 190304005112 TM-ABC transporter signature motif; other site 190304005113 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 190304005114 putative substrate translocation pore; other site 190304005115 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 190304005116 tetramer (dimer of dimers) interface [polypeptide binding]; other site 190304005117 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 190304005118 NAD binding site [chemical binding]; other site 190304005119 dimer interface [polypeptide binding]; other site 190304005120 substrate binding site [chemical binding]; other site 190304005121 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 190304005122 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 190304005123 dimer interface [polypeptide binding]; other site 190304005124 PYR/PP interface [polypeptide binding]; other site 190304005125 TPP binding site [chemical binding]; other site 190304005126 substrate binding site [chemical binding]; other site 190304005127 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 190304005128 Domain of unknown function; Region: EKR; smart00890 190304005129 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 190304005130 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 190304005131 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 190304005132 TPP-binding site [chemical binding]; other site 190304005133 dimer interface [polypeptide binding]; other site 190304005134 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 190304005135 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 190304005136 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 190304005137 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 190304005138 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 190304005139 CRISPR-associated helicase Cas3 [Defense mechanisms]; Region: COG1203 190304005140 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 190304005141 CRISPR/Cas system-associated protein Cas3; Region: Cas3_I; cd09639 190304005142 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-B; cd09658 190304005143 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl18995 190304005144 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cd09650 190304005145 CRISPR/Cas system-associated protein Cas8a1; Region: Cas8a1_I-A; cd09744 190304005146 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 190304005147 Abortive infection bacteriophage resistance protein [Defense mechanisms]; Region: AbiF; COG4823 190304005148 SIR2H: Uncharacterized prokaryotic Sir2 homologs from several gram positive bacterial species and Fusobacteria; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone...; Region: SIR2H; cd01411 190304005149 NAD+ binding site [chemical binding]; other site 190304005150 substrate binding site [chemical binding]; other site 190304005151 putative Zn binding site [ion binding]; other site 190304005152 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 190304005153 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 190304005154 metal binding site [ion binding]; metal-binding site 190304005155 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 190304005156 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 190304005157 substrate binding pocket [chemical binding]; other site 190304005158 membrane-bound complex binding site; other site 190304005159 hinge residues; other site 190304005160 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 190304005161 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 190304005162 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 190304005163 RloB-like protein; Region: RloB; pfam13707 190304005164 Predicted ATPases [General function prediction only]; Region: COG1106 190304005165 AAA domain; Region: AAA_21; pfam13304 190304005166 AAA domain; Region: AAA_21; pfam13304 190304005167 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 190304005168 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 190304005169 active site 190304005170 DNA binding site [nucleotide binding] 190304005171 Autotransporter beta-domain; Region: Autotransporter; cl17461 190304005172 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 190304005173 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 190304005174 homodimer interface [polypeptide binding]; other site 190304005175 NAD binding pocket [chemical binding]; other site 190304005176 ATP binding pocket [chemical binding]; other site 190304005177 Mg binding site [ion binding]; other site 190304005178 active-site loop [active] 190304005179 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 190304005180 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 190304005181 GTP/Mg2+ binding site [chemical binding]; other site 190304005182 G4 box; other site 190304005183 G5 box; other site 190304005184 G1 box; other site 190304005185 Switch I region; other site 190304005186 G2 box; other site 190304005187 G3 box; other site 190304005188 Switch II region; other site 190304005189 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 190304005190 putative SAM binding site [chemical binding]; other site 190304005191 putative homodimer interface [polypeptide binding]; other site 190304005192 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 190304005193 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 190304005194 protein binding site [polypeptide binding]; other site 190304005195 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 190304005196 Catalytic dyad [active] 190304005197 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 190304005198 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 190304005199 RNA binding surface [nucleotide binding]; other site 190304005200 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 190304005201 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 190304005202 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 190304005203 Zn2+ binding site [ion binding]; other site 190304005204 Mg2+ binding site [ion binding]; other site 190304005205 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 190304005206 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 190304005207 TPP-binding site; other site 190304005208 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 190304005209 PYR/PP interface [polypeptide binding]; other site 190304005210 dimer interface [polypeptide binding]; other site 190304005211 TPP binding site [chemical binding]; other site 190304005212 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 190304005213 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 190304005214 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 190304005215 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 190304005216 RNA-metabolizing metallo-beta-lactamase; Region: RMMBL; pfam07521 190304005217 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 190304005218 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 190304005219 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 190304005220 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 190304005221 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 190304005222 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 190304005223 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 190304005224 FeS/SAM binding site; other site 190304005225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 190304005226 Predicted transcriptional regulator [Transcription]; Region: COG1959 190304005227 Rrf2 family protein; Region: rrf2_super; TIGR00738 190304005228 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 190304005229 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 190304005230 Walker A motif; other site 190304005231 ATP binding site [chemical binding]; other site 190304005232 Walker B motif; other site 190304005233 arginine finger; other site 190304005234 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 190304005235 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 190304005236 cysteine synthase; Region: PLN02565 190304005237 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 190304005238 dimer interface [polypeptide binding]; other site 190304005239 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304005240 catalytic residue [active] 190304005241 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3878 190304005242 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4922 190304005243 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 190304005244 FMN binding site [chemical binding]; other site 190304005245 dimer interface [polypeptide binding]; other site 190304005246 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 190304005247 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 190304005248 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 190304005249 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 190304005250 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 190304005251 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 190304005252 ligand binding site [chemical binding]; other site 190304005253 active site 190304005254 UGI interface [polypeptide binding]; other site 190304005255 catalytic site [active] 190304005256 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 190304005257 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 190304005258 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 190304005259 active site 190304005260 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 190304005261 Predicted transcriptional regulators [Transcription]; Region: COG1733 190304005262 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 190304005263 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 190304005264 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 190304005265 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 190304005266 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 190304005267 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 190304005268 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 190304005269 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 190304005270 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 190304005271 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 190304005272 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 190304005273 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 190304005274 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 190304005275 active site 190304005276 metal-binding site 190304005277 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 190304005278 Phosphotransferase enzyme family; Region: APH; pfam01636 190304005279 active site 190304005280 ATP binding site [chemical binding]; other site 190304005281 substrate binding site [chemical binding]; other site 190304005282 dimer interface [polypeptide binding]; other site 190304005283 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 190304005284 O-Antigen ligase; Region: Wzy_C; pfam04932 190304005285 Lipopolysaccharide core biosynthesis protein (WaaY); Region: WaaY; cl17526 190304005286 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 190304005287 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 190304005288 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 190304005289 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 190304005290 putative active site [active] 190304005291 putative metal binding site [ion binding]; other site 190304005292 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 190304005293 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 190304005294 active site 190304005295 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 190304005296 putative active site [active] 190304005297 putative metal binding site [ion binding]; other site 190304005298 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 190304005299 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 190304005300 putative ADP-binding pocket [chemical binding]; other site 190304005301 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 190304005302 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 190304005303 Uncharacterized conserved protein [Function unknown]; Region: COG4283 190304005304 Predicted transcriptional regulator [Transcription]; Region: COG2378 190304005305 HTH domain; Region: HTH_11; pfam08279 190304005306 WYL domain; Region: WYL; pfam13280 190304005307 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 190304005308 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 190304005309 Uncharacterized protein probably involved in high-affinity Fe2+ transport [Inorganic ion transport and metabolism]; Region: Tpd; COG3470 190304005310 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 190304005311 putative FMN binding site [chemical binding]; other site 190304005312 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 190304005313 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 190304005314 active site 190304005315 motif I; other site 190304005316 motif II; other site 190304005317 HAD-hyrolase-like; Region: Hydrolase_like; cl19142 190304005318 DctM-like transporters; Region: DctM; pfam06808 190304005319 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 190304005320 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 190304005321 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 190304005322 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 190304005323 putative uracil binding site [chemical binding]; other site 190304005324 putative active site [active] 190304005325 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 190304005326 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 190304005327 dimer interface [polypeptide binding]; other site 190304005328 phosphorylation site [posttranslational modification] 190304005329 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 190304005330 ATP binding site [chemical binding]; other site 190304005331 Mg2+ binding site [ion binding]; other site 190304005332 G-X-G motif; other site 190304005333 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 190304005334 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 190304005335 active site 190304005336 phosphorylation site [posttranslational modification] 190304005337 intermolecular recognition site; other site 190304005338 dimerization interface [polypeptide binding]; other site 190304005339 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 190304005340 DNA binding site [nucleotide binding] 190304005341 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 190304005342 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 190304005343 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 190304005344 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 190304005345 active site 190304005346 C-terminal domain interface [polypeptide binding]; other site 190304005347 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 190304005348 active site 190304005349 N-terminal domain interface [polypeptide binding]; other site 190304005350 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 190304005351 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 190304005352 ligand binding site [chemical binding]; other site 190304005353 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 190304005354 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 190304005355 active site 190304005356 tetramer interface; other site 190304005357 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 190304005358 binding surface 190304005359 TPR motif; other site 190304005360 TPR repeat; Region: TPR_11; pfam13414 190304005361 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 190304005362 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 190304005363 active site 190304005364 HIGH motif; other site 190304005365 KMSKS motif; other site 190304005366 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 190304005367 tRNA binding surface [nucleotide binding]; other site 190304005368 anticodon binding site; other site 190304005369 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 190304005370 dimer interface [polypeptide binding]; other site 190304005371 putative tRNA-binding site [nucleotide binding]; other site 190304005372 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 190304005373 putative acyl-acceptor binding pocket; other site 190304005374 hypothetical protein; Validated; Region: PRK00153 190304005375 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 190304005376 tandem repeat interface [polypeptide binding]; other site 190304005377 oligomer interface [polypeptide binding]; other site 190304005378 active site residues [active] 190304005379 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 190304005380 tandem repeat interface [polypeptide binding]; other site 190304005381 oligomer interface [polypeptide binding]; other site 190304005382 active site residues [active] 190304005383 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 190304005384 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 190304005385 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 190304005386 Outer membrane efflux protein; Region: OEP; pfam02321 190304005387 Outer membrane efflux protein; Region: OEP; pfam02321 190304005388 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 190304005389 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 190304005390 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 190304005391 HlyD family secretion protein; Region: HlyD_3; pfam13437 190304005392 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 190304005393 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 190304005394 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 190304005395 metal binding site [ion binding]; metal-binding site 190304005396 dimer interface [polypeptide binding]; other site 190304005397 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 190304005398 Coenzyme A binding pocket [chemical binding]; other site 190304005399 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 190304005400 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 190304005401 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 190304005402 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 190304005403 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 190304005404 active site 190304005405 substrate binding site [chemical binding]; other site 190304005406 Mg2+ binding site [ion binding]; other site 190304005407 Cysteine protease [Posttranslational modification, protein turnover, chaperones]; Region: COG4870 190304005408 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 190304005409 active site 190304005410 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 190304005411 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 190304005412 alphaNTD homodimer interface [polypeptide binding]; other site 190304005413 DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type; Region: rpoA; TIGR02027 190304005414 alphaNTD - beta interaction site [polypeptide binding]; other site 190304005415 alphaNTD - beta' interaction site [polypeptide binding]; other site 190304005416 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 190304005417 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 190304005418 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 190304005419 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 190304005420 RNA binding surface [nucleotide binding]; other site 190304005421 30S ribosomal protein S11; Validated; Region: PRK05309 190304005422 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 190304005423 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 190304005424 rRNA binding site [nucleotide binding]; other site 190304005425 predicted 30S ribosome binding site; other site 190304005426 DKNYY family; Region: DKNYY; pfam13644 190304005427 DKNYY family; Region: DKNYY; pfam13644 190304005428 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 190304005429 DKNYY family; Region: DKNYY; pfam13644 190304005430 DKNYY family; Region: DKNYY; pfam13644 190304005431 DKNYY family; Region: DKNYY; pfam13644 190304005432 DKNYY family; Region: DKNYY; pfam13644 190304005433 DKNYY family; Region: DKNYY; pfam13644 190304005434 DKNYY family; Region: DKNYY; pfam13644 190304005435 DKNYY family; Region: DKNYY; pfam13644 190304005436 DKNYY family; Region: DKNYY; pfam13644 190304005437 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 190304005438 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 190304005439 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 190304005440 Coenzyme A binding pocket [chemical binding]; other site 190304005441 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 190304005442 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 190304005443 active site 190304005444 adenylate kinase; Reviewed; Region: adk; PRK00279 190304005445 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 190304005446 AMP-binding site [chemical binding]; other site 190304005447 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 190304005448 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 190304005449 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 190304005450 putative NAD(P) binding site [chemical binding]; other site 190304005451 active site 190304005452 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 190304005453 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 190304005454 ABC transporter; Region: ABC_tran_2; pfam12848 190304005455 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 190304005456 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 190304005457 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 190304005458 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 190304005459 dimer interface [polypeptide binding]; other site 190304005460 ssDNA binding site [nucleotide binding]; other site 190304005461 tetramer (dimer of dimers) interface [polypeptide binding]; other site 190304005462 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 190304005463 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 190304005464 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 190304005465 Putative methyltransferase; Region: Methyltransf_20; pfam12147 190304005466 Methyltransferase domain; Region: Methyltransf_31; pfam13847 190304005467 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 190304005468 S-adenosylmethionine binding site [chemical binding]; other site 190304005469 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 190304005470 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 190304005471 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 190304005472 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 190304005473 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 190304005474 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 190304005475 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 190304005476 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 190304005477 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 190304005478 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 190304005479 DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; Region: RpoD; COG0568 190304005480 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 190304005481 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 190304005482 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 190304005483 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 190304005484 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 190304005485 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 190304005486 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 190304005487 DNA binding residues [nucleotide binding] 190304005488 DNA primase; Validated; Region: dnaG; PRK05667 190304005489 CHC2 zinc finger; Region: zf-CHC2; cl17510 190304005490 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 190304005491 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 190304005492 active site 190304005493 metal binding site [ion binding]; metal-binding site 190304005494 interdomain interaction site; other site 190304005495 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 190304005496 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 190304005497 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 190304005498 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 190304005499 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 190304005500 active site 190304005501 phosphorylation site [posttranslational modification] 190304005502 intermolecular recognition site; other site 190304005503 dimerization interface [polypeptide binding]; other site 190304005504 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 190304005505 Walker A motif; other site 190304005506 ATP binding site [chemical binding]; other site 190304005507 Walker B motif; other site 190304005508 arginine finger; other site 190304005509 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 190304005510 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 190304005511 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 190304005512 active site 190304005513 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 190304005514 putative substrate binding region [chemical binding]; other site 190304005515 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 190304005516 thymidylate kinase; Provisional; Region: PRK13975; cl17243 190304005517 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 190304005518 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 190304005519 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 190304005520 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 190304005521 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 190304005522 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 190304005523 active site 190304005524 dimer interface [polypeptide binding]; other site 190304005525 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 190304005526 substrate binding pocket [chemical binding]; other site 190304005527 chain length determination region; other site 190304005528 substrate-Mg2+ binding site; other site 190304005529 catalytic residues [active] 190304005530 aspartate-rich region 1; other site 190304005531 active site lid residues [active] 190304005532 aspartate-rich region 2; other site 190304005533 Exonuclease VII small subunit [DNA replication, recombination, and repair]; Region: XseB; COG1722 190304005534 Methyltransferase domain; Region: Methyltransf_31; pfam13847 190304005535 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 190304005536 S-adenosylmethionine binding site [chemical binding]; other site 190304005537 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 190304005538 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 190304005539 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 190304005540 S-adenosylmethionine binding site [chemical binding]; other site 190304005541 peptide chain release factor 1; Validated; Region: prfA; PRK00591 190304005542 PCRF domain; Region: PCRF; pfam03462 190304005543 RF-1 domain; Region: RF-1; pfam00472 190304005544 Short chain fatty acid transporter; Region: SCFA_trans; cl17380 190304005545 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 190304005546 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 190304005547 active site 190304005548 metal binding site [ion binding]; metal-binding site 190304005549 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 190304005550 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 190304005551 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 190304005552 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 190304005553 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 190304005554 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 190304005555 active site 190304005556 HIGH motif; other site 190304005557 KMSKS motif; other site 190304005558 peptide chain release factor 2; Provisional; Region: PRK05589 190304005559 This domain is found in peptide chain release factors; Region: PCRF; smart00937 190304005560 RF-1 domain; Region: RF-1; pfam00472 190304005561 Phosphopantetheinyl transferase (holo-ACP synthase) [Lipid metabolism]; Region: AcpS; COG0736 190304005562 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 190304005563 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 190304005564 active site 190304005565 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 190304005566 Putative lysophospholipase; Region: Hydrolase_4; cl19140 190304005567 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 190304005568 Uncharacterized conserved protein [Function unknown]; Region: COG1359 190304005569 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 190304005570 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 190304005571 Walker A/P-loop; other site 190304005572 ATP binding site [chemical binding]; other site 190304005573 Q-loop/lid; other site 190304005574 ABC transporter signature motif; other site 190304005575 Walker B; other site 190304005576 D-loop; other site 190304005577 H-loop/switch region; other site 190304005578 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 190304005579 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 190304005580 FtsX-like permease family; Region: FtsX; pfam02687 190304005581 Domain of unknown function (DUF4418); Region: DUF4418; pfam14387 190304005582 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]; Region: COG4939 190304005583 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 190304005584 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 190304005585 Walker A/P-loop; other site 190304005586 ATP binding site [chemical binding]; other site 190304005587 Q-loop/lid; other site 190304005588 ABC transporter signature motif; other site 190304005589 Walker B; other site 190304005590 D-loop; other site 190304005591 H-loop/switch region; other site 190304005592 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 190304005593 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 190304005594 FtsX-like permease family; Region: FtsX; pfam02687 190304005595 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 190304005596 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 190304005597 FtsX-like permease family; Region: FtsX; pfam02687 190304005598 Predicted membrane protein [Function unknown]; Region: COG4393 190304005599 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 190304005600 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 190304005601 Transposase; Region: DEDD_Tnp_IS110; pfam01548 190304005602 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 190304005603 SseB protein N-terminal domain; Region: SseB; pfam07179 190304005604 SseB protein C-terminal domain; Region: SseB_C; pfam14581 190304005605 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 190304005606 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_11; cd08516 190304005607 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 190304005608 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 190304005609 dimer interface [polypeptide binding]; other site 190304005610 conserved gate region; other site 190304005611 putative PBP binding loops; other site 190304005612 ABC-ATPase subunit interface; other site 190304005613 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 190304005614 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 190304005615 dimer interface [polypeptide binding]; other site 190304005616 conserved gate region; other site 190304005617 putative PBP binding loops; other site 190304005618 ABC-ATPase subunit interface; other site 190304005619 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 190304005620 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 190304005621 Walker A/P-loop; other site 190304005622 ATP binding site [chemical binding]; other site 190304005623 Q-loop/lid; other site 190304005624 ABC transporter signature motif; other site 190304005625 Walker B; other site 190304005626 D-loop; other site 190304005627 H-loop/switch region; other site 190304005628 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 190304005629 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 190304005630 Walker A/P-loop; other site 190304005631 ATP binding site [chemical binding]; other site 190304005632 Q-loop/lid; other site 190304005633 ABC transporter signature motif; other site 190304005634 Walker B; other site 190304005635 D-loop; other site 190304005636 H-loop/switch region; other site 190304005637 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 190304005638 GTP-binding protein YchF; Reviewed; Region: PRK09601 190304005639 YchF GTPase; Region: YchF; cd01900 190304005640 G1 box; other site 190304005641 GTP/Mg2+ binding site [chemical binding]; other site 190304005642 Switch I region; other site 190304005643 G2 box; other site 190304005644 Switch II region; other site 190304005645 G3 box; other site 190304005646 G4 box; other site 190304005647 G5 box; other site 190304005648 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 190304005649 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 190304005650 substrate binding site [chemical binding]; other site 190304005651 dimer interface [polypeptide binding]; other site 190304005652 catalytic triad [active] 190304005653 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 190304005654 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 190304005655 active site 190304005656 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]; Region: COG3478 190304005657 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 190304005658 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 190304005659 RNA/DNA hybrid binding site [nucleotide binding]; other site 190304005660 active site 190304005661 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 190304005662 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 190304005663 RNA binding surface [nucleotide binding]; other site 190304005664 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 190304005665 active site 190304005666 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 190304005667 putative deacylase active site [active] 190304005668 Propionate catabolism activator; Region: PrpR_N; pfam06506 190304005669 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 190304005670 Na+/citrate symporter [Energy production and conversion]; Region: CitS; COG3493 190304005671 oxaloacetate decarboxylase; Provisional; Region: PRK12331 190304005672 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 190304005673 active site 190304005674 catalytic residues [active] 190304005675 metal binding site [ion binding]; metal-binding site 190304005676 homodimer binding site [polypeptide binding]; other site 190304005677 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 190304005678 triphosphoribosyl-dephospho-CoA synthase CitG; Region: citrate_citG; TIGR03125 190304005679 Citrate lyase, gamma subunit [Energy production and conversion]; Region: CitD; COG3052 190304005680 citrate lyase, beta subunit; Region: citE; TIGR01588 190304005681 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 190304005682 Autotransporter beta-domain; Region: Autotransporter; pfam03797 190304005683 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 190304005684 AAA domain; Region: AAA_14; pfam13173 190304005685 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 190304005686 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 190304005687 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 190304005688 active site 190304005689 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 190304005690 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 190304005691 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 190304005692 generic binding surface I; other site 190304005693 generic binding surface II; other site 190304005694 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 190304005695 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 190304005696 Coenzyme A binding pocket [chemical binding]; other site 190304005697 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 190304005698 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 190304005699 ATP binding site [chemical binding]; other site 190304005700 putative Mg++ binding site [ion binding]; other site 190304005701 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 190304005702 nucleotide binding region [chemical binding]; other site 190304005703 ATP-binding site [chemical binding]; other site 190304005704 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 190304005705 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 190304005706 Coenzyme A binding pocket [chemical binding]; other site 190304005707 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 190304005708 signal recognition particle protein; Provisional; Region: PRK10867 190304005709 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 190304005710 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 190304005711 P loop; other site 190304005712 GTP binding site [chemical binding]; other site 190304005713 Signal peptide binding domain; Region: SRP_SPB; pfam02978 190304005714 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2739 190304005715 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 190304005716 glutaminase A; Region: Gln_ase; TIGR03814 190304005717 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 190304005718 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 190304005719 Predicted ATPase [General function prediction only]; Region: COG3899 190304005720 AAA ATPase domain; Region: AAA_16; pfam13191 190304005721 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 190304005722 binding surface 190304005723 TPR motif; other site 190304005724 Urocanate hydratase [Amino acid transport and metabolism]; Region: HutU; COG2987 190304005725 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 190304005726 Nucleoside recognition; Region: Gate; pfam07670 190304005727 Predicted permease [General function prediction only]; Region: COG2056 190304005728 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 190304005729 transmembrane helices; other site 190304005730 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 190304005731 imidazolonepropionase; Validated; Region: PRK09356 190304005732 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 190304005733 active site 190304005734 Methenyl tetrahydrofolate cyclohydrolase [Amino acid transport and metabolism]; Region: COG3404 190304005735 Aromatic amino acid lyase; Region: Lyase_aromatic; pfam00221 190304005736 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 190304005737 active sites [active] 190304005738 tetramer interface [polypeptide binding]; other site 190304005739 glutamate formiminotransferase; Region: FtcD; TIGR02024 190304005740 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 190304005741 Formiminotransferase domain; Region: FTCD; pfam02971 190304005742 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 190304005743 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 190304005744 metal binding site [ion binding]; metal-binding site 190304005745 dimer interface [polypeptide binding]; other site 190304005746 threonine dehydratase; Provisional; Region: PRK08198 190304005747 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 190304005748 tetramer interface [polypeptide binding]; other site 190304005749 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304005750 catalytic residue [active] 190304005751 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 190304005752 Predicted kinase [General function prediction only]; Region: COG4857 190304005753 Phosphotransferase enzyme family; Region: APH; pfam01636 190304005754 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 190304005755 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 190304005756 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 190304005757 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 190304005758 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 190304005759 dimer interface [polypeptide binding]; other site 190304005760 active site 190304005761 metal binding site [ion binding]; metal-binding site 190304005762 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 190304005763 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 190304005764 DNA-binding site [nucleotide binding]; DNA binding site 190304005765 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 190304005766 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304005767 homodimer interface [polypeptide binding]; other site 190304005768 catalytic residue [active] 190304005769 L-fuculose phosphate aldolase; Provisional; Region: PRK06833 190304005770 intersubunit interface [polypeptide binding]; other site 190304005771 active site 190304005772 Zn2+ binding site [ion binding]; other site 190304005773 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 190304005774 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 190304005775 DNA-binding site [nucleotide binding]; DNA binding site 190304005776 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 190304005777 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304005778 homodimer interface [polypeptide binding]; other site 190304005779 catalytic residue [active] 190304005780 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 190304005781 homodimer interface [polypeptide binding]; other site 190304005782 substrate-cofactor binding pocket; other site 190304005783 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304005784 catalytic residue [active] 190304005785 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 190304005786 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 190304005787 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 190304005788 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 190304005789 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 190304005790 dimer interface [polypeptide binding]; other site 190304005791 PYR/PP interface [polypeptide binding]; other site 190304005792 TPP binding site [chemical binding]; other site 190304005793 substrate binding site [chemical binding]; other site 190304005794 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 190304005795 Domain of unknown function; Region: EKR; smart00890 190304005796 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 190304005797 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 190304005798 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 190304005799 TPP-binding site [chemical binding]; other site 190304005800 dimer interface [polypeptide binding]; other site 190304005801 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 190304005802 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 190304005803 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 190304005804 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 190304005805 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 190304005806 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 190304005807 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 190304005808 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 190304005809 FAD binding site [chemical binding]; other site 190304005810 homotetramer interface [polypeptide binding]; other site 190304005811 substrate binding pocket [chemical binding]; other site 190304005812 catalytic base [active] 190304005813 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 190304005814 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 190304005815 Rubredoxin [Energy production and conversion]; Region: COG1773 190304005816 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 190304005817 iron binding site [ion binding]; other site 190304005818 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 190304005819 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 190304005820 catalytic triad [active] 190304005821 putative active site [active] 190304005822 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 190304005823 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 190304005824 Autotransporter beta-domain; Region: Autotransporter; pfam03797 190304005825 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 190304005826 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 190304005827 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 190304005828 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 190304005829 Walker A/P-loop; other site 190304005830 ATP binding site [chemical binding]; other site 190304005831 Q-loop/lid; other site 190304005832 ABC transporter signature motif; other site 190304005833 Walker B; other site 190304005834 D-loop; other site 190304005835 H-loop/switch region; other site 190304005836 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 190304005837 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 190304005838 Walker A/P-loop; other site 190304005839 ATP binding site [chemical binding]; other site 190304005840 Q-loop/lid; other site 190304005841 ABC transporter signature motif; other site 190304005842 Walker B; other site 190304005843 D-loop; other site 190304005844 H-loop/switch region; other site 190304005845 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 190304005846 TM-ABC transporter signature motif; other site 190304005847 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 190304005848 TM-ABC transporter signature motif; other site 190304005849 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 190304005850 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 190304005851 putative ligand binding site [chemical binding]; other site 190304005852 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 190304005853 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 190304005854 NAD(P) binding site [chemical binding]; other site 190304005855 active site 190304005856 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 190304005857 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 190304005858 binding surface 190304005859 TPR motif; other site 190304005860 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 190304005861 binding surface 190304005862 TPR motif; other site 190304005863 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 190304005864 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 190304005865 binding surface 190304005866 TPR motif; other site 190304005867 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 190304005868 binding surface 190304005869 TPR motif; other site 190304005870 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 190304005871 binding surface 190304005872 TPR motif; other site 190304005873 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 190304005874 TPR motif; other site 190304005875 binding surface 190304005876 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 190304005877 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 190304005878 ABC transporter signature motif; other site 190304005879 Walker B; other site 190304005880 D-loop; other site 190304005881 Ribosomal protein L28 [Translation, ribosomal structure and biogenesis]; Region: RpmB; COG0227 190304005882 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 190304005883 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 190304005884 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 190304005885 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 190304005886 putative substrate binding site [chemical binding]; other site 190304005887 putative ATP binding site [chemical binding]; other site 190304005888 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 190304005889 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 190304005890 active site 190304005891 phosphorylation site [posttranslational modification] 190304005892 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 190304005893 active site 190304005894 P-loop; other site 190304005895 phosphorylation site [posttranslational modification] 190304005896 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 190304005897 Integrase core domain; Region: rve; pfam00665 190304005898 Integrase core domain; Region: rve_2; pfam13333 190304005899 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 190304005900 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cl17393 190304005901 DNA-binding interface [nucleotide binding]; DNA binding site 190304005902 Transposase; Region: HTH_Tnp_1; cl17663 190304005903 GMP synthase; Reviewed; Region: guaA; PRK00074 190304005904 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 190304005905 AMP/PPi binding site [chemical binding]; other site 190304005906 candidate oxyanion hole; other site 190304005907 catalytic triad [active] 190304005908 potential glutamine specificity residues [chemical binding]; other site 190304005909 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 190304005910 ATP Binding subdomain [chemical binding]; other site 190304005911 Ligand Binding sites [chemical binding]; other site 190304005912 Dimerization subdomain; other site 190304005913 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 190304005914 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 190304005915 ATP binding site [chemical binding]; other site 190304005916 AAA domain; Region: AAA_12; pfam13087 190304005917 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 190304005918 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 190304005919 Helix-turn-helix domain; Region: HTH_28; pfam13518 190304005920 Integrase core domain; Region: rve; pfam00665 190304005921 Integrase core domain; Region: rve_2; pfam13333 190304005922 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 190304005923 Autotransporter beta-domain; Region: Autotransporter; pfam03797 190304005924 Predicted permease [General function prediction only]; Region: COG2985 190304005925 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 190304005926 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 190304005927 cell division protein FtsZ; Validated; Region: PRK09330 190304005928 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 190304005929 nucleotide binding site [chemical binding]; other site 190304005930 SulA interaction site; other site 190304005931 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 190304005932 Cell division protein FtsA; Region: FtsA; smart00842 190304005933 Cell division protein FtsA; Region: FtsA; pfam14450 190304005934 Cell division protein FtsQ; Region: FtsQ; pfam03799 190304005935 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 190304005936 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 190304005937 ATP-grasp domain; Region: ATP-grasp_4; cl17255 190304005938 UDP-N-acetylmuramate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: MurB; COG0812 190304005939 FAD binding domain; Region: FAD_binding_4; pfam01565 190304005940 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 190304005941 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 190304005942 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 190304005943 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 190304005944 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 190304005945 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 190304005946 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 190304005947 active site 190304005948 homodimer interface [polypeptide binding]; other site 190304005949 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 190304005950 Protein of unknown function (DUF1611); Region: DUF1611; cl19508 190304005951 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 190304005952 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 190304005953 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 190304005954 Mg++ binding site [ion binding]; other site 190304005955 putative catalytic motif [active] 190304005956 putative substrate binding site [chemical binding]; other site 190304005957 Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]; Region: HisB; COG0241 190304005958 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 190304005959 active site 190304005960 motif I; other site 190304005961 motif II; other site 190304005962 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 190304005963 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 190304005964 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 190304005965 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 190304005966 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 190304005967 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 190304005968 DNA-binding site [nucleotide binding]; DNA binding site 190304005969 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 190304005970 pyridoxal 5'-phosphate binding site [chemical binding]; other site 190304005971 homodimer interface [polypeptide binding]; other site 190304005972 catalytic residue [active] 190304005973 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 190304005974 active site 190304005975 multimer interface [polypeptide binding]; other site 190304005976 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 190304005977 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 190304005978 TPP-binding site; other site 190304005979 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 190304005980 PYR/PP interface [polypeptide binding]; other site 190304005981 dimer interface [polypeptide binding]; other site 190304005982 TPP binding site [chemical binding]; other site 190304005983 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 190304005984 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 190304005985 EamA-like transporter family; Region: EamA; pfam00892 190304005986 EamA-like transporter family; Region: EamA; pfam00892 190304005987 Uncharacterized protein conserved in bacteria (DUF2262); Region: DUF2262; cl01757 190304005988 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 190304005989 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 190304005990 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 190304005991 cyclically-permuted mutarotase family protein; Region: mutarot_permut; TIGR03548 190304005992 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 190304005993 Transcriptional regulators [Transcription]; Region: PurR; COG1609 190304005994 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 190304005995 DNA binding site [nucleotide binding] 190304005996 domain linker motif; other site 190304005997 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 190304005998 ligand binding site [chemical binding]; other site 190304005999 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 190304006000 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 190304006001 DctM-like transporters; Region: DctM; pfam06808 190304006002 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 190304006003 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 190304006004 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 190304006005 nucleotide binding site [chemical binding]; other site 190304006006 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 190304006007 inhibitor site; inhibition site 190304006008 active site 190304006009 dimer interface [polypeptide binding]; other site 190304006010 catalytic residue [active] 190304006011 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 190304006012 putative active site cavity [active] 190304006013 EamA-like transporter family; Region: EamA; pfam00892 190304006014 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 190304006015 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 190304006016 MgtE intracellular N domain; Region: MgtE_N; smart00924 190304006017 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 190304006018 Divalent cation transporter; Region: MgtE; pfam01769 190304006019 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 190304006020 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 190304006021 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 190304006022 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 190304006023 Zn2+ binding site [ion binding]; other site 190304006024 Mg2+ binding site [ion binding]; other site 190304006025 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 190304006026 synthetase active site [active] 190304006027 NTP binding site [chemical binding]; other site 190304006028 metal binding site [ion binding]; metal-binding site 190304006029 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 190304006030 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 190304006031 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 190304006032 active site 190304006033 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 190304006034 Tetratricopeptide repeat; Region: TPR_16; pfam13432 190304006035 TPR motif; other site 190304006036 Uncharacterized conserved protein [Function unknown]; Region: COG2928 190304006037 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 190304006038 Domain of unknown function DUF21; Region: DUF21; pfam01595 190304006039 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 190304006040 Transporter associated domain; Region: CorC_HlyC; smart01091 190304006041 ACT domain-containing protein [General function prediction only]; Region: PheB; COG4492 190304006042 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 190304006043 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 190304006044 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 190304006045 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 190304006046 homodimer interface [polypeptide binding]; other site 190304006047 NADP binding site [chemical binding]; other site 190304006048 substrate binding site [chemical binding]; other site 190304006049 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 190304006050 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 190304006051 putative active site [active] 190304006052 substrate binding site [chemical binding]; other site 190304006053 putative cosubstrate binding site; other site 190304006054 catalytic site [active] 190304006055 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 190304006056 substrate binding site [chemical binding]; other site 190304006057 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 190304006058 ATP cone domain; Region: ATP-cone; pfam03477 190304006059 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 190304006060 active site 190304006061 phosphorylation site [posttranslational modification] 190304006062 Recombination protein O N terminal; Region: RecO_N; pfam11967 190304006063 DNA repair protein RecO; Region: reco; TIGR00613 190304006064 Recombination protein O C terminal; Region: RecO_C; pfam02565 190304006065 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl19192 190304006066 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923