-- dump date 20120504_160142 -- class Genbank::misc_feature -- table misc_feature_note -- id note 349101000001 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 349101000002 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 349101000003 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 349101000004 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101000005 Walker A/P-loop; other site 349101000006 ATP binding site [chemical binding]; other site 349101000007 Q-loop/lid; other site 349101000008 ABC transporter signature motif; other site 349101000009 Walker B; other site 349101000010 D-loop; other site 349101000011 H-loop/switch region; other site 349101000012 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 349101000013 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; cl16911 349101000014 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 349101000015 NeuB family; Region: NeuB; cl00496 349101000016 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 349101000017 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 349101000018 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 349101000019 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 349101000020 substrate binding site; other site 349101000021 tetramer interface; other site 349101000022 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 349101000023 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 349101000024 NADP binding site [chemical binding]; other site 349101000025 active site 349101000026 putative substrate binding site [chemical binding]; other site 349101000027 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 349101000028 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 349101000029 NAD binding site [chemical binding]; other site 349101000030 substrate binding site [chemical binding]; other site 349101000031 homodimer interface [polypeptide binding]; other site 349101000032 active site 349101000033 Cupin domain; Region: Cupin_2; cl09118 349101000034 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 349101000035 Probable Catalytic site; other site 349101000036 Replication initiator protein A; Region: RPA; cl02339 349101000037 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 349101000038 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 349101000039 P-loop; other site 349101000040 Magnesium ion binding site [ion binding]; other site 349101000041 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 349101000042 Magnesium ion binding site [ion binding]; other site 349101000043 ParB-like nuclease domain; Region: ParBc; cl02129 349101000044 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 349101000045 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 349101000046 Walker A/P-loop; other site 349101000047 ATP binding site [chemical binding]; other site 349101000048 Q-loop/lid; other site 349101000049 ABC transporter signature motif; other site 349101000050 Walker B; other site 349101000051 D-loop; other site 349101000052 H-loop/switch region; other site 349101000053 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 349101000054 ABC-2 type transporter; Region: ABC2_membrane; cl11417 349101000055 Glycoside hydrolase families 71, 99, and related domains; Region: GH99_GH71_like; cl01529 349101000056 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 349101000057 putative ligand binding site [chemical binding]; other site 349101000058 putative catalytic site [active] 349101000059 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 349101000060 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 349101000061 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 349101000062 L-ribulokinase; Region: L-ribulokinase; TIGR01234 349101000063 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 349101000064 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349101000065 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 349101000066 putative NAD(P) binding site [chemical binding]; other site 349101000067 active site 349101000068 putative substrate binding site [chemical binding]; other site 349101000069 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 349101000070 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 349101000071 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 349101000072 alpha subunit interaction interface [polypeptide binding]; other site 349101000073 Walker A motif; other site 349101000074 ATP binding site [chemical binding]; other site 349101000075 Walker B motif; other site 349101000076 inhibitor binding site; inhibition site 349101000077 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 349101000078 F0F1 ATP synthase subunit epsilon; Provisional; Region: PRK13447 349101000079 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 349101000080 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 349101000081 ATP synthase A chain; Region: ATP-synt_A; cl00413 349101000082 ATP synthase subunit C; Region: ATP-synt_C; cl00466 349101000083 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 349101000084 F0F1 ATP synthase subunit alpha; Provisional; Region: PRK13343 349101000085 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101000086 Walker A motif; other site 349101000087 ATP binding site [chemical binding]; other site 349101000088 Walker B motif; other site 349101000089 ATP synthase; Region: ATP-synt; cl00365 349101000090 DDE superfamily endonuclease; Region: DDE_4; cl15789 349101000091 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349101000092 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 349101000093 RHS Repeat; Region: RHS_repeat; cl11982 349101000094 RHS Repeat; Region: RHS_repeat; cl11982 349101000095 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 349101000096 Cupin domain; Region: Cupin_2; cl09118 349101000097 Helix-turn-helix domain; Region: HTH_18; pfam12833 349101000098 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 349101000099 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 349101000100 DNA binding residues [nucleotide binding] 349101000101 dimer interface [polypeptide binding]; other site 349101000102 putative metal binding site [ion binding]; other site 349101000103 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 349101000104 Cation efflux family; Region: Cation_efflux; cl00316 349101000105 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349101000106 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 349101000107 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 349101000108 FecR protein; Region: FecR; pfam04773 349101000109 Secretin and TonB N terminus short domain; Region: STN; cl06624 349101000110 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 349101000111 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 349101000112 N-terminal plug; other site 349101000113 ligand-binding site [chemical binding]; other site 349101000114 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 349101000115 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 349101000116 intersubunit interface [polypeptide binding]; other site 349101000117 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 349101000118 ABC-ATPase subunit interface; other site 349101000119 dimer interface [polypeptide binding]; other site 349101000120 putative PBP binding regions; other site 349101000121 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 349101000122 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 349101000123 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349101000124 Walker A/P-loop; other site 349101000125 ATP binding site [chemical binding]; other site 349101000126 Q-loop/lid; other site 349101000127 ABC transporter signature motif; other site 349101000128 Walker B; other site 349101000129 D-loop; other site 349101000130 H-loop/switch region; other site 349101000131 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 349101000132 CoenzymeA binding site [chemical binding]; other site 349101000133 subunit interaction site [polypeptide binding]; other site 349101000134 PHB binding site; other site 349101000135 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 349101000136 LysE type translocator; Region: LysE; cl00565 349101000137 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 349101000138 Helix-turn-helix domains; Region: HTH; cl00088 349101000139 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 349101000140 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg3; cd01282 349101000141 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 349101000142 DNA binding residues [nucleotide binding] 349101000143 putative dimer interface [polypeptide binding]; other site 349101000144 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 349101000145 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349101000146 Helix-turn-helix domains; Region: HTH; cl00088 349101000147 The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold; Region: PBP2_ToxR; cd08465 349101000148 putative substrate binding pocket [chemical binding]; other site 349101000149 putative dimerization interface [polypeptide binding]; other site 349101000150 Protein of unknown function, DUF606; Region: DUF606; cl01273 349101000151 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 349101000152 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 349101000153 Ligand Binding Site [chemical binding]; other site 349101000154 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 349101000155 Sulfate transporter family; Region: Sulfate_transp; cl15842 349101000156 Sulfate transporter family; Region: Sulfate_transp; cl15842 349101000157 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 349101000158 Mechanosensitive ion channel; Region: MS_channel; pfam00924 349101000159 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 349101000160 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 349101000161 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349101000162 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101000163 DNA-binding site [nucleotide binding]; DNA binding site 349101000164 FCD domain; Region: FCD; cl11656 349101000165 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 349101000166 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 349101000167 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349101000168 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 349101000169 dimer interface [polypeptide binding]; other site 349101000170 conserved gate region; other site 349101000171 putative PBP binding loops; other site 349101000172 ABC-ATPase subunit interface; other site 349101000173 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 349101000174 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 349101000175 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 349101000176 dimer interface [polypeptide binding]; other site 349101000177 conserved gate region; other site 349101000178 putative PBP binding loops; other site 349101000179 ABC-ATPase subunit interface; other site 349101000180 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 349101000181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101000182 NAD(P) binding site [chemical binding]; other site 349101000183 active site 349101000184 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 349101000185 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101000186 NAD(P) binding site [chemical binding]; other site 349101000187 active site 349101000188 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 349101000189 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 349101000190 active site pocket [active] 349101000191 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 349101000192 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 349101000193 putative active site [active] 349101000194 Zn binding site [ion binding]; other site 349101000195 Uncharacterized conserved protein [Function unknown]; Region: COG5476 349101000196 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 349101000197 MlrC C-terminus; Region: MlrC_C; pfam07171 349101000198 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 349101000199 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 349101000200 active site pocket [active] 349101000201 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 349101000202 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101000203 Walker A/P-loop; other site 349101000204 ATP binding site [chemical binding]; other site 349101000205 Q-loop/lid; other site 349101000206 ABC transporter signature motif; other site 349101000207 Walker B; other site 349101000208 D-loop; other site 349101000209 H-loop/switch region; other site 349101000210 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349101000211 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 349101000212 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101000213 Walker A/P-loop; other site 349101000214 ATP binding site [chemical binding]; other site 349101000215 Q-loop/lid; other site 349101000216 ABC transporter signature motif; other site 349101000217 Walker B; other site 349101000218 D-loop; other site 349101000219 H-loop/switch region; other site 349101000220 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349101000221 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 349101000222 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 349101000223 Flagellar protein FlbT; Region: FlbT; cl11455 349101000224 Flagellar protein FlaF; Region: FlaF; cl11454 349101000225 flagellin; Reviewed; Region: PRK12687 349101000226 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 349101000227 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 349101000228 active site 349101000229 catalytic residues [active] 349101000230 Helix-turn-helix domains; Region: HTH; cl00088 349101000231 DNA-binding site [nucleotide binding]; DNA binding site 349101000232 FCD domain; Region: FCD; cl11656 349101000233 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 349101000234 Helix-turn-helix domains; Region: HTH; cl00088 349101000235 TOBE domain; Region: TOBE_2; cl01440 349101000236 TOBE domain; Region: TOBE_2; cl01440 349101000237 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 349101000238 molybdenum transport protein ModD; Provisional; Region: PRK06096 349101000239 dimerization interface [polypeptide binding]; other site 349101000240 active site 349101000241 TOBE domain; Region: TOBE_2; cl01440 349101000242 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 349101000243 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101000244 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 349101000245 dimer interface [polypeptide binding]; other site 349101000246 conserved gate region; other site 349101000247 putative PBP binding loops; other site 349101000248 ABC-ATPase subunit interface; other site 349101000249 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101000250 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 349101000251 Walker A/P-loop; other site 349101000252 ATP binding site [chemical binding]; other site 349101000253 Q-loop/lid; other site 349101000254 ABC transporter signature motif; other site 349101000255 Walker B; other site 349101000256 D-loop; other site 349101000257 H-loop/switch region; other site 349101000258 TOBE domain; Region: TOBE_2; cl01440 349101000259 Exopolysaccharide synthesis, ExoD; Region: ExoD; cl01617 349101000260 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 349101000261 putative outer membrane receptor; Provisional; Region: PRK13513 349101000262 Rrf2 family protein; Region: rrf2_super; TIGR00738 349101000263 Helix-turn-helix domains; Region: HTH; cl00088 349101000264 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 349101000265 LysE type translocator; Region: LysE; cl00565 349101000266 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 349101000267 Helix-turn-helix domains; Region: HTH; cl00088 349101000268 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101000269 dimerization interface [polypeptide binding]; other site 349101000270 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101000271 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 349101000272 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 349101000273 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 349101000274 dimer interface [polypeptide binding]; other site 349101000275 conserved gate region; other site 349101000276 putative PBP binding loops; other site 349101000277 ABC-ATPase subunit interface; other site 349101000278 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 349101000279 dimer interface [polypeptide binding]; other site 349101000280 conserved gate region; other site 349101000281 putative PBP binding loops; other site 349101000282 ABC-ATPase subunit interface; other site 349101000283 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 349101000284 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 349101000285 Walker A/P-loop; other site 349101000286 ATP binding site [chemical binding]; other site 349101000287 Q-loop/lid; other site 349101000288 ABC transporter signature motif; other site 349101000289 Walker B; other site 349101000290 D-loop; other site 349101000291 H-loop/switch region; other site 349101000292 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 349101000293 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 349101000294 putative DNA binding site [nucleotide binding]; other site 349101000295 putative Zn2+ binding site [ion binding]; other site 349101000296 AsnC family; Region: AsnC_trans_reg; pfam01037 349101000297 UPF0126 domain; Region: UPF0126; pfam03458 349101000298 UPF0126 domain; Region: UPF0126; pfam03458 349101000299 Calx-beta domain; Region: Calx-beta; cl02522 349101000300 Calx-beta domain; Region: Calx-beta; cl02522 349101000301 Calx-beta domain; Region: Calx-beta; cl02522 349101000302 Calx-beta domain; Region: Calx-beta; cl02522 349101000303 Calx-beta domain; Region: Calx-beta; cl02522 349101000304 Calx-beta domain; Region: Calx-beta; cl02522 349101000305 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 349101000306 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 349101000307 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101000308 Walker A motif; other site 349101000309 ATP binding site [chemical binding]; other site 349101000310 Walker B motif; other site 349101000311 Rod binding protein; Region: Rod-binding; cl01626 349101000312 DNA topoisomerase 2; Provisional; Region: PLN03237 349101000313 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 349101000314 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12813 349101000315 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 349101000316 FlgD Ig-like domain; Region: FlgD_ig; cl15790 349101000317 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349101000318 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 349101000319 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 349101000320 S-adenosylmethionine binding site [chemical binding]; other site 349101000321 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; cl16911 349101000322 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 349101000323 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 349101000324 DNA binding site [nucleotide binding] 349101000325 catalytic residue [active] 349101000326 H2TH interface [polypeptide binding]; other site 349101000327 putative catalytic residues [active] 349101000328 turnover-facilitating residue; other site 349101000329 intercalation triad [nucleotide binding]; other site 349101000330 8OG recognition residue [nucleotide binding]; other site 349101000331 putative reading head residues; other site 349101000332 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 349101000333 enoyl-CoA hydratase; Provisional; Region: PRK05862 349101000334 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 349101000335 substrate binding site [chemical binding]; other site 349101000336 oxyanion hole (OAH) forming residues; other site 349101000337 trimer interface [polypeptide binding]; other site 349101000338 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 349101000339 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 349101000340 DnaA N-terminal domain; Region: DnaA_N; pfam11638 349101000341 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 349101000342 Walker A motif; other site 349101000343 ATP binding site [chemical binding]; other site 349101000344 Walker B motif; other site 349101000345 arginine finger; other site 349101000346 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 349101000347 DnaA box-binding interface [nucleotide binding]; other site 349101000348 DNA polymerase III subunit beta; Validated; Region: PRK05643 349101000349 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 349101000350 putative DNA binding surface [nucleotide binding]; other site 349101000351 dimer interface [polypeptide binding]; other site 349101000352 beta-clamp/clamp loader binding surface; other site 349101000353 beta-clamp/translesion DNA polymerase binding surface; other site 349101000354 recombination protein F; Reviewed; Region: recF; PRK00064 349101000355 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101000356 Walker A/P-loop; other site 349101000357 ATP binding site [chemical binding]; other site 349101000358 Q-loop/lid; other site 349101000359 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101000360 ABC transporter signature motif; other site 349101000361 Walker B; other site 349101000362 D-loop; other site 349101000363 H-loop/switch region; other site 349101000364 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349101000365 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 349101000366 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 349101000367 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 349101000368 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 349101000369 anchoring element; other site 349101000370 dimer interface [polypeptide binding]; other site 349101000371 ATP binding site [chemical binding]; other site 349101000372 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 349101000373 active site 349101000374 putative metal-binding site [ion binding]; other site 349101000375 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 349101000376 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 349101000377 Predicted ATPase [General function prediction only]; Region: COG1485 349101000378 phosphoserine phosphatase SerB; Region: serB; TIGR00338 349101000379 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 349101000380 motif II; other site 349101000381 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; cd01494 349101000382 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349101000383 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 349101000384 catalytic residue [active] 349101000385 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 349101000386 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101000387 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 349101000388 putative L-serine binding site [chemical binding]; other site 349101000389 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 349101000390 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349101000391 active site 349101000392 metal binding site [ion binding]; metal-binding site 349101000393 beta-ketothiolase; Provisional; Region: PRK09051 349101000394 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 349101000395 dimer interface [polypeptide binding]; other site 349101000396 active site 349101000397 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 349101000398 Transglycosylase; Region: Transgly; cl07896 349101000399 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 349101000400 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 349101000401 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 349101000402 putative binding site; other site 349101000403 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 349101000404 MG2 domain; Region: A2M_N; pfam01835 349101000405 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 349101000406 Alpha-2-macroglobulin family; Region: A2M; pfam00207 349101000407 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 349101000408 surface patch; other site 349101000409 thioester region; other site 349101000410 specificity defining residues; other site 349101000411 PAS fold; Region: PAS_7; pfam12860 349101000412 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 349101000413 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 349101000414 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 349101000415 dimer interface [polypeptide binding]; other site 349101000416 phosphorylation site [posttranslational modification] 349101000417 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 349101000418 ATP binding site [chemical binding]; other site 349101000419 Mg2+ binding site [ion binding]; other site 349101000420 G-X-G motif; other site 349101000421 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 349101000422 Response regulator receiver domain; Region: Response_reg; pfam00072 349101000423 active site 349101000424 phosphorylation site [posttranslational modification] 349101000425 intermolecular recognition site; other site 349101000426 dimerization interface [polypeptide binding]; other site 349101000427 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 349101000428 Response regulator receiver domain; Region: Response_reg; pfam00072 349101000429 active site 349101000430 phosphorylation site [posttranslational modification] 349101000431 intermolecular recognition site; other site 349101000432 dimerization interface [polypeptide binding]; other site 349101000433 Protein of unknown function (DUF328); Region: DUF328; cl01143 349101000434 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 349101000435 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 349101000436 ATP binding site [chemical binding]; other site 349101000437 putative Mg++ binding site [ion binding]; other site 349101000438 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 349101000439 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 349101000440 active site residue [active] 349101000441 nucleotide binding region [chemical binding]; other site 349101000442 ATP-binding site [chemical binding]; other site 349101000443 RQC domain; Region: RQC; cl09632 349101000444 HRDC domain; Region: HRDC; cl02578 349101000445 HRDC domain; Region: HRDC; cl02578 349101000446 YGGT family; Region: YGGT; cl00508 349101000447 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 349101000448 active site 349101000449 bifunctional 3-hydroxyacyl-CoA dehydrogenase/thioesterase; Validated; Region: PRK07531 349101000450 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 349101000451 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 349101000452 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 349101000453 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 349101000454 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 349101000455 RF-1 domain; Region: RF-1; cl02875 349101000456 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 349101000457 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 349101000458 active site 349101000459 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 349101000460 Isochorismatase family; Region: Isochorismatase; pfam00857 349101000461 catalytic triad [active] 349101000462 metal binding site [ion binding]; metal-binding site 349101000463 conserved cis-peptide bond; other site 349101000464 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 349101000465 classical (c) SDRs; Region: SDR_c; cd05233 349101000466 NAD(P) binding site [chemical binding]; other site 349101000467 active site 349101000468 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 349101000469 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 349101000470 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 349101000471 active site 349101000472 catalytic site [active] 349101000473 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 349101000474 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349101000475 putative substrate translocation pore; other site 349101000476 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 349101000477 putative substrate translocation pore; other site 349101000478 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 349101000479 Glycosyltransferase family 29 (sialyltransferase); Region: Glyco_transf_29; pfam00777 349101000480 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 349101000481 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101000482 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 349101000483 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 349101000484 active site clefts [active] 349101000485 zinc binding site [ion binding]; other site 349101000486 dimer interface [polypeptide binding]; other site 349101000487 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 349101000488 interface (dimer of trimers) [polypeptide binding]; other site 349101000489 Substrate-binding/catalytic site; other site 349101000490 Zn-binding sites [ion binding]; other site 349101000491 NlpC/P60 family; Region: NLPC_P60; cl11438 349101000492 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 349101000493 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 349101000494 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 349101000495 L-asparaginase II; Region: Asparaginase_II; cl01842 349101000496 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 349101000497 NADH(P)-binding; Region: NAD_binding_10; pfam13460 349101000498 putative NAD(P) binding site [chemical binding]; other site 349101000499 AMP nucleosidase; Provisional; Region: PRK08292 349101000500 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 349101000501 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 349101000502 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 349101000503 IHF dimer interface [polypeptide binding]; other site 349101000504 IHF - DNA interface [nucleotide binding]; other site 349101000505 EamA-like transporter family; Region: EamA; cl01037 349101000506 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 349101000507 Tetramer interface [polypeptide binding]; other site 349101000508 active site 349101000509 FMN-binding site [chemical binding]; other site 349101000510 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101000511 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 349101000512 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 349101000513 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349101000514 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 349101000515 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101000516 Walker A/P-loop; other site 349101000517 ATP binding site [chemical binding]; other site 349101000518 Q-loop/lid; other site 349101000519 ABC transporter signature motif; other site 349101000520 Walker B; other site 349101000521 D-loop; other site 349101000522 H-loop/switch region; other site 349101000523 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 349101000524 cytochrome b; Provisional; Region: CYTB; MTH00119 349101000525 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 349101000526 intrachain domain interface; other site 349101000527 interchain domain interface [polypeptide binding]; other site 349101000528 heme bH binding site [chemical binding]; other site 349101000529 Qi binding site; other site 349101000530 heme bL binding site [chemical binding]; other site 349101000531 Qo binding site; other site 349101000532 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 349101000533 interchain domain interface [polypeptide binding]; other site 349101000534 intrachain domain interface; other site 349101000535 Qi binding site; other site 349101000536 Qo binding site; other site 349101000537 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 349101000538 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 349101000539 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 349101000540 [2Fe-2S] cluster binding site [ion binding]; other site 349101000541 putative glutathione S-transferase; Provisional; Region: PRK10357 349101000542 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349101000543 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 349101000544 dimer interface [polypeptide binding]; other site 349101000545 N-terminal domain interface [polypeptide binding]; other site 349101000546 putative substrate binding pocket (H-site) [chemical binding]; other site 349101000547 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 349101000548 N-formylglutamate amidohydrolase; Region: FGase; cl01522 349101000549 DNA polymerase IV; Provisional; Region: PRK02794 349101000550 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 349101000551 active site 349101000552 DNA binding site [nucleotide binding] 349101000553 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 349101000554 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 349101000555 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 349101000556 active site 349101000557 dimer interface [polypeptide binding]; other site 349101000558 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 349101000559 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 349101000560 Clp amino terminal domain; Region: Clp_N; pfam02861 349101000561 Clp amino terminal domain; Region: Clp_N; pfam02861 349101000562 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 349101000563 Walker A motif; other site 349101000564 ATP binding site [chemical binding]; other site 349101000565 Walker B motif; other site 349101000566 arginine finger; other site 349101000567 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 349101000568 Walker A motif; other site 349101000569 ATP binding site [chemical binding]; other site 349101000570 Walker B motif; other site 349101000571 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 349101000572 Fasciclin domain; Region: Fasciclin; cl02663 349101000573 TMAO/DMSO reductase; Reviewed; Region: PRK05363 349101000574 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 349101000575 Moco binding site; other site 349101000576 metal coordination site [ion binding]; other site 349101000577 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 349101000578 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 349101000579 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 349101000580 NADP binding site [chemical binding]; other site 349101000581 dimer interface [polypeptide binding]; other site 349101000582 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349101000583 Helix-turn-helix domains; Region: HTH; cl00088 349101000584 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101000585 Walker A/P-loop; other site 349101000586 ATP binding site [chemical binding]; other site 349101000587 ABC transporter; Region: ABC_tran; pfam00005 349101000588 Q-loop/lid; other site 349101000589 ABC transporter signature motif; other site 349101000590 Walker B; other site 349101000591 D-loop; other site 349101000592 H-loop/switch region; other site 349101000593 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 349101000594 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349101000595 Walker A/P-loop; other site 349101000596 ATP binding site [chemical binding]; other site 349101000597 Q-loop/lid; other site 349101000598 ABC transporter signature motif; other site 349101000599 Walker B; other site 349101000600 D-loop; other site 349101000601 H-loop/switch region; other site 349101000602 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 349101000603 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 349101000604 ABC-ATPase subunit interface; other site 349101000605 dimer interface [polypeptide binding]; other site 349101000606 putative PBP binding regions; other site 349101000607 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 349101000608 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 349101000609 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 349101000610 siderophore binding site; other site 349101000611 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 349101000612 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 349101000613 N-terminal plug; other site 349101000614 ligand-binding site [chemical binding]; other site 349101000615 Helix-turn-helix domains; Region: HTH; cl00088 349101000616 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 349101000617 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 349101000618 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 349101000619 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349101000620 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101000621 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 349101000622 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 349101000623 dimer interface [polypeptide binding]; other site 349101000624 conserved gate region; other site 349101000625 putative PBP binding loops; other site 349101000626 ABC-ATPase subunit interface; other site 349101000627 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 349101000628 dimer interface [polypeptide binding]; other site 349101000629 conserved gate region; other site 349101000630 putative PBP binding loops; other site 349101000631 ABC-ATPase subunit interface; other site 349101000632 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 349101000633 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 349101000634 Walker A/P-loop; other site 349101000635 ATP binding site [chemical binding]; other site 349101000636 Q-loop/lid; other site 349101000637 ABC transporter signature motif; other site 349101000638 Walker B; other site 349101000639 D-loop; other site 349101000640 H-loop/switch region; other site 349101000641 TOBE domain; Region: TOBE_2; cl01440 349101000642 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 349101000643 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 349101000644 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 349101000645 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 349101000646 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 349101000647 tetramer interface [polypeptide binding]; other site 349101000648 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101000649 catalytic residue [active] 349101000650 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 349101000651 Helix-turn-helix domains; Region: HTH; cl00088 349101000652 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 349101000653 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 349101000654 active site 349101000655 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; cd00995 349101000656 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 349101000657 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349101000658 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 349101000659 dimer interface [polypeptide binding]; other site 349101000660 conserved gate region; other site 349101000661 putative PBP binding loops; other site 349101000662 ABC-ATPase subunit interface; other site 349101000663 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 349101000664 dimer interface [polypeptide binding]; other site 349101000665 conserved gate region; other site 349101000666 putative PBP binding loops; other site 349101000667 ABC-ATPase subunit interface; other site 349101000668 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 349101000669 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101000670 Walker A/P-loop; other site 349101000671 ATP binding site [chemical binding]; other site 349101000672 Q-loop/lid; other site 349101000673 ABC transporter signature motif; other site 349101000674 Walker B; other site 349101000675 D-loop; other site 349101000676 H-loop/switch region; other site 349101000677 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101000678 Walker A/P-loop; other site 349101000679 ATP binding site [chemical binding]; other site 349101000680 Q-loop/lid; other site 349101000681 ABC transporter signature motif; other site 349101000682 Walker B; other site 349101000683 D-loop; other site 349101000684 H-loop/switch region; other site 349101000685 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349101000686 allantoate amidohydrolase; Reviewed; Region: PRK09290 349101000687 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 349101000688 active site 349101000689 metal binding site [ion binding]; metal-binding site 349101000690 dimer interface [polypeptide binding]; other site 349101000691 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349101000692 active site 349101000693 ATP binding site [chemical binding]; other site 349101000694 substrate binding site [chemical binding]; other site 349101000695 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 349101000696 Phosphotransferase enzyme family; Region: APH; pfam01636 349101000697 active site 349101000698 ATP binding site [chemical binding]; other site 349101000699 substrate binding site [chemical binding]; other site 349101000700 dimer interface [polypeptide binding]; other site 349101000701 DNA Polymerase Y-family; Region: PolY_like; cd03468 349101000702 active site 349101000703 DNA binding site [nucleotide binding] 349101000704 Potato inhibitor I family; Region: potato_inhibit; cl15459 349101000705 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 349101000706 putative metal binding site [ion binding]; other site 349101000707 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 349101000708 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 349101000709 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 349101000710 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 349101000711 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 349101000712 CoA-transferase family III; Region: CoA_transf_3; pfam02515 349101000713 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349101000714 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 349101000715 Protein of unknown function (DUF721); Region: DUF721; cl02324 349101000716 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 349101000717 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 349101000718 minor groove reading motif; other site 349101000719 helix-hairpin-helix signature motif; other site 349101000720 substrate binding pocket [chemical binding]; other site 349101000721 active site 349101000722 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 349101000723 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 349101000724 DNA binding and oxoG recognition site [nucleotide binding] 349101000725 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 349101000726 Di-iron ligands [ion binding]; other site 349101000727 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 349101000728 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; cl16911 349101000729 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 349101000730 RNA/DNA hybrid binding site [nucleotide binding]; other site 349101000731 active site 349101000732 Helix-turn-helix domains; Region: HTH; cl00088 349101000733 DNA binding site [nucleotide binding] 349101000734 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 349101000735 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 349101000736 dimer interface [polypeptide binding]; other site 349101000737 active site 349101000738 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349101000739 catalytic residues [active] 349101000740 substrate binding site [chemical binding]; other site 349101000741 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 349101000742 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101000743 NAD(P) binding pocket [chemical binding]; other site 349101000744 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 349101000745 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349101000746 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 349101000747 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 349101000748 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101000749 Walker A/P-loop; other site 349101000750 ATP binding site [chemical binding]; other site 349101000751 Q-loop/lid; other site 349101000752 ABC transporter signature motif; other site 349101000753 Walker B; other site 349101000754 D-loop; other site 349101000755 H-loop/switch region; other site 349101000756 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349101000757 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101000758 Walker A/P-loop; other site 349101000759 ATP binding site [chemical binding]; other site 349101000760 Q-loop/lid; other site 349101000761 ABC transporter signature motif; other site 349101000762 Walker B; other site 349101000763 D-loop; other site 349101000764 H-loop/switch region; other site 349101000765 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 349101000766 dimer interface [polypeptide binding]; other site 349101000767 conserved gate region; other site 349101000768 ABC-ATPase subunit interface; other site 349101000769 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 349101000770 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 349101000771 dimer interface [polypeptide binding]; other site 349101000772 conserved gate region; other site 349101000773 putative PBP binding loops; other site 349101000774 ABC-ATPase subunit interface; other site 349101000775 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 349101000776 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 349101000777 peptide binding site [polypeptide binding]; other site 349101000778 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 349101000779 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 349101000780 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 349101000781 ATP binding site [chemical binding]; other site 349101000782 Mg++ binding site [ion binding]; other site 349101000783 motif III; other site 349101000784 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 349101000785 nucleotide binding region [chemical binding]; other site 349101000786 ATP-binding site [chemical binding]; other site 349101000787 DbpA RNA binding domain; Region: DbpA; pfam03880 349101000788 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349101000789 Helix-turn-helix domains; Region: HTH; cl00088 349101000790 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 349101000791 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 349101000792 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 349101000793 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 349101000794 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 349101000795 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 349101000796 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 349101000797 Trm112p-like protein; Region: Trm112p; cl01066 349101000798 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101000799 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 349101000800 hypothetical protein; Provisional; Region: PRK06102 349101000801 Amidase; Region: Amidase; cl11426 349101000802 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 349101000803 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 349101000804 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101000805 homodimer interface [polypeptide binding]; other site 349101000806 catalytic residue [active] 349101000807 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 349101000808 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101000809 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 349101000810 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 349101000811 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 349101000812 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349101000813 catalytic residue [active] 349101000814 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 349101000815 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 349101000816 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 349101000817 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 349101000818 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 349101000819 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 349101000820 anti sigma factor interaction site; other site 349101000821 regulatory phosphorylation site [posttranslational modification]; other site 349101000822 GAF domain; Region: GAF; cl15785 349101000823 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 349101000824 active site 349101000825 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 349101000826 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349101000827 active site 349101000828 metal binding site [ion binding]; metal-binding site 349101000829 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 349101000830 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349101000831 NAD binding site [chemical binding]; other site 349101000832 catalytic residues [active] 349101000833 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 349101000834 HemY protein N-terminus; Region: HemY_N; pfam07219 349101000835 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 349101000836 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 349101000837 active site 349101000838 UGMP family protein; Validated; Region: PRK09604 349101000839 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 349101000840 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 349101000841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101000842 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 349101000843 YCII-related domain; Region: YCII; cl00999 349101000844 EVE domain; Region: EVE; cl00728 349101000845 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 349101000846 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 349101000847 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101000848 catalytic residue [active] 349101000849 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 349101000850 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 349101000851 oligomerization interface [polypeptide binding]; other site 349101000852 active site 349101000853 NAD+ binding site [chemical binding]; other site 349101000854 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 349101000855 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 349101000856 Ligand binding site; other site 349101000857 metal-binding site 349101000858 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 349101000859 K-box region; Region: K-box; pfam01486 349101000860 H-NS histone family; Region: Histone_HNS; pfam00816 349101000861 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 349101000862 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 349101000863 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 349101000864 active site 349101000865 phosphorylation site [posttranslational modification] 349101000866 intermolecular recognition site; other site 349101000867 dimerization interface [polypeptide binding]; other site 349101000868 Helix-turn-helix domains; Region: HTH; cl00088 349101000869 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 349101000870 Cu(I) binding site [ion binding]; other site 349101000871 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349101000872 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 349101000873 dimer interface [polypeptide binding]; other site 349101000874 phosphorylation site [posttranslational modification] 349101000875 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 349101000876 ATP binding site [chemical binding]; other site 349101000877 Mg2+ binding site [ion binding]; other site 349101000878 G-X-G motif; other site 349101000879 PAS fold; Region: PAS_7; pfam12860 349101000880 PAS fold; Region: PAS_7; pfam12860 349101000881 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 349101000882 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349101000883 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349101000884 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 349101000885 Substrate binding site; other site 349101000886 metal-binding site 349101000887 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 349101000888 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 349101000889 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 349101000890 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 349101000891 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101000892 Family description; Region: UvrD_C_2; cl15862 349101000893 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 349101000894 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 349101000895 catalytic residues [active] 349101000896 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 349101000897 active site 349101000898 HslU subunit interaction site [polypeptide binding]; other site 349101000899 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 349101000900 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 349101000901 Walker A motif; other site 349101000902 ATP binding site [chemical binding]; other site 349101000903 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101000904 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 349101000905 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 349101000906 Phosphopantetheine attachment site; Region: PP-binding; cl09936 349101000907 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 349101000908 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 349101000909 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101000910 active site 349101000911 (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 349101000912 dimer interaction site [polypeptide binding]; other site 349101000913 substrate-binding tunnel; other site 349101000914 active site 349101000915 catalytic site [active] 349101000916 substrate binding site [chemical binding]; other site 349101000917 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 349101000918 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 349101000919 substrate binding site; other site 349101000920 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 349101000921 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 349101000922 active site 349101000923 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 349101000924 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 349101000925 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 349101000926 Walker A/P-loop; other site 349101000927 ATP binding site [chemical binding]; other site 349101000928 Q-loop/lid; other site 349101000929 ABC transporter signature motif; other site 349101000930 Walker B; other site 349101000931 D-loop; other site 349101000932 H-loop/switch region; other site 349101000933 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 349101000934 Imelysin; Region: Peptidase_M75; cl09159 349101000935 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 349101000936 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 349101000937 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 349101000938 heme binding site [chemical binding]; other site 349101000939 ferroxidase pore; other site 349101000940 ferroxidase diiron center [ion binding]; other site 349101000941 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 349101000942 Imelysin; Region: Peptidase_M75; cl09159 349101000943 Hemin uptake protein hemP; Region: hemP; cl10043 349101000944 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 349101000945 putative metal binding site [ion binding]; other site 349101000946 Transcriptional regulator [Transcription]; Region: IclR; COG1414 349101000947 Bacterial transcriptional regulator; Region: IclR; pfam01614 349101000948 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_19; cd07262 349101000949 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349101000950 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 349101000951 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 349101000952 hypothetical protein; Provisional; Region: PRK11171 349101000953 Cupin domain; Region: Cupin_2; cl09118 349101000954 Cupin domain; Region: Cupin_2; cl09118 349101000955 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 349101000956 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 349101000957 active site 349101000958 catalytic site [active] 349101000959 tetramer interface [polypeptide binding]; other site 349101000960 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 349101000961 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 349101000962 active site 349101000963 homotetramer interface [polypeptide binding]; other site 349101000964 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 349101000965 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 349101000966 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 349101000967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101000968 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 349101000969 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 349101000970 AMP-binding enzyme; Region: AMP-binding; cl15778 349101000971 AMP-binding enzyme; Region: AMP-binding; cl15778 349101000972 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 349101000973 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 349101000974 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 349101000975 Domain of unknown function DUF20; Region: UPF0118; pfam01594 349101000976 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 349101000977 Sensors of blue-light using FAD; Region: BLUF; cl04855 349101000978 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 349101000979 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 349101000980 putative active site [active] 349101000981 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 349101000982 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 349101000983 putative active site [active] 349101000984 heme pocket [chemical binding]; other site 349101000985 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 349101000986 dimer interface [polypeptide binding]; other site 349101000987 phosphorylation site [posttranslational modification] 349101000988 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 349101000989 ATP binding site [chemical binding]; other site 349101000990 Mg2+ binding site [ion binding]; other site 349101000991 G-X-G motif; other site 349101000992 Response regulator receiver domain; Region: Response_reg; pfam00072 349101000993 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 349101000994 active site 349101000995 phosphorylation site [posttranslational modification] 349101000996 intermolecular recognition site; other site 349101000997 dimerization interface [polypeptide binding]; other site 349101000998 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 349101000999 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 349101001000 aminotransferase; Validated; Region: PRK07046 349101001001 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 349101001002 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349101001003 catalytic residue [active] 349101001004 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 349101001005 ATP-grasp domain; Region: ATP-grasp_4; cl03087 349101001006 AIR carboxylase; Region: AIRC; cl00310 349101001007 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 349101001008 putative dimer interface [polypeptide binding]; other site 349101001009 Protein of unknown function (DUF1150); Region: DUF1150; cl11577 349101001010 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 349101001011 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 349101001012 ATP-sulfurylase; Region: ATPS; cd00517 349101001013 active site 349101001014 HXXH motif; other site 349101001015 flexible loop; other site 349101001016 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 349101001017 ligand-binding site [chemical binding]; other site 349101001018 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 349101001019 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349101001020 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 349101001021 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 349101001022 putative DNA binding site [nucleotide binding]; other site 349101001023 putative Zn2+ binding site [ion binding]; other site 349101001024 AsnC family; Region: AsnC_trans_reg; pfam01037 349101001025 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 349101001026 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 349101001027 Uncharacterized conserved protein [Function unknown]; Region: COG1565 349101001028 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 349101001029 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 349101001030 Membrane fusogenic activity; Region: BMFP; cl01115 349101001031 Response regulator receiver domain; Region: Response_reg; pfam00072 349101001032 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 349101001033 active site 349101001034 phosphorylation site [posttranslational modification] 349101001035 intermolecular recognition site; other site 349101001036 dimerization interface [polypeptide binding]; other site 349101001037 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 349101001038 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 349101001039 putative binding surface; other site 349101001040 active site 349101001041 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 349101001042 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 349101001043 ATP binding site [chemical binding]; other site 349101001044 Mg2+ binding site [ion binding]; other site 349101001045 G-X-G motif; other site 349101001046 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 349101001047 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 349101001048 putative CheA interaction surface; other site 349101001049 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 349101001050 putative CheA interaction surface; other site 349101001051 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 349101001052 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 349101001053 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 349101001054 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 349101001055 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 349101001056 active site 349101001057 phosphorylation site [posttranslational modification] 349101001058 intermolecular recognition site; other site 349101001059 dimerization interface [polypeptide binding]; other site 349101001060 CheB methylesterase; Region: CheB_methylest; pfam01339 349101001061 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 349101001062 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349101001063 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 349101001064 putative dimer interface [polypeptide binding]; other site 349101001065 N-terminal domain interface [polypeptide binding]; other site 349101001066 putative substrate binding pocket (H-site) [chemical binding]; other site 349101001067 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 349101001068 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 349101001069 active site 349101001070 phosphorylation site [posttranslational modification] 349101001071 intermolecular recognition site; other site 349101001072 dimerization interface [polypeptide binding]; other site 349101001073 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 349101001074 Walker A motif; other site 349101001075 ATP binding site [chemical binding]; other site 349101001076 Walker B motif; other site 349101001077 arginine finger; other site 349101001078 Helix-turn-helix domains; Region: HTH; cl00088 349101001079 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 349101001080 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 349101001081 AMP-binding enzyme; Region: AMP-binding; cl15778 349101001082 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349101001083 malic enzyme; Reviewed; Region: PRK12862 349101001084 Malic enzyme, N-terminal domain; Region: malic; pfam00390 349101001085 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 349101001086 putative NAD(P) binding site [chemical binding]; other site 349101001087 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 349101001088 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 349101001089 active site 349101001090 catalytic motif [active] 349101001091 Zn binding site [ion binding]; other site 349101001092 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 349101001093 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 349101001094 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 349101001095 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 349101001096 Sulfatase; Region: Sulfatase; cl10460 349101001097 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 349101001098 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 349101001099 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 349101001100 active site 349101001101 purine riboside binding site [chemical binding]; other site 349101001102 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349101001103 active site 349101001104 Sporulation related domain; Region: SPOR; cl10051 349101001105 acyl-CoA synthetase; Validated; Region: PRK08162 349101001106 AMP-binding enzyme; Region: AMP-binding; cl15778 349101001107 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349101001108 EamA-like transporter family; Region: EamA; cl01037 349101001109 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 349101001110 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; cl16911 349101001111 DctM-like transporters; Region: DctM; pfam06808 349101001112 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349101001113 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 349101001114 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 349101001115 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349101001116 Transcriptional regulators [Transcription]; Region: FadR; COG2186 349101001117 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101001118 DNA-binding site [nucleotide binding]; DNA binding site 349101001119 FCD domain; Region: FCD; cl11656 349101001120 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101001121 DNA-binding site [nucleotide binding]; DNA binding site 349101001122 FCD domain; Region: FCD; cl11656 349101001123 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 349101001124 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 349101001125 putative NAD(P) binding site [chemical binding]; other site 349101001126 catalytic Zn binding site [ion binding]; other site 349101001127 structural Zn binding site [ion binding]; other site 349101001128 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 349101001129 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 349101001130 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 349101001131 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 349101001132 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 349101001133 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 349101001134 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 349101001135 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 349101001136 ATP binding site [chemical binding]; other site 349101001137 Mg2+ binding site [ion binding]; other site 349101001138 G-X-G motif; other site 349101001139 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 349101001140 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 349101001141 active site 349101001142 phosphorylation site [posttranslational modification] 349101001143 intermolecular recognition site; other site 349101001144 dimerization interface [polypeptide binding]; other site 349101001145 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 349101001146 Walker A motif; other site 349101001147 ATP binding site [chemical binding]; other site 349101001148 Walker B motif; other site 349101001149 arginine finger; other site 349101001150 Helix-turn-helix domains; Region: HTH; cl00088 349101001151 NMT1-like family; Region: NMT1_2; cl15260 349101001152 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 349101001153 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349101001154 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349101001155 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 349101001156 Phage-related protein [Function unknown]; Region: COG4695; cl01923 349101001157 Phage portal protein; Region: Phage_portal; pfam04860 349101001158 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 349101001159 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 349101001160 Phage capsid family; Region: Phage_capsid; pfam05065 349101001161 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 349101001162 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 349101001163 oligomerization interface [polypeptide binding]; other site 349101001164 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 349101001165 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 349101001166 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 349101001167 Phage terminase, small subunit; Region: Terminase_4; cl01525 349101001168 Phage Terminase; Region: Terminase_1; pfam03354 349101001169 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 349101001170 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 349101001171 active site 349101001172 catalytic residues [active] 349101001173 DNA binding site [nucleotide binding] 349101001174 Int/Topo IB signature motif; other site 349101001175 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349101001176 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349101001177 DNA binding site [nucleotide binding] 349101001178 domain linker motif; other site 349101001179 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 349101001180 putative dimerization interface [polypeptide binding]; other site 349101001181 putative ligand binding site [chemical binding]; other site 349101001182 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 349101001183 LysE type translocator; Region: LysE; cl00565 349101001184 LytB protein; Region: LYTB; cl00507 349101001185 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 349101001186 LabA_like proteins; Region: LabA; cd10911 349101001187 putative metal binding site [ion binding]; other site 349101001188 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 349101001189 catalytic center binding site [active] 349101001190 ATP binding site [chemical binding]; other site 349101001191 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 349101001192 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 349101001193 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 349101001194 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 349101001195 synthetase active site [active] 349101001196 NTP binding site [chemical binding]; other site 349101001197 metal binding site [ion binding]; metal-binding site 349101001198 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 349101001199 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 349101001200 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 349101001201 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cl00541 349101001202 active site 349101001203 hydrophilic channel; other site 349101001204 dimerization interface [polypeptide binding]; other site 349101001205 catalytic residues [active] 349101001206 active site lid [active] 349101001207 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 349101001208 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 349101001209 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 349101001210 Catalytic site [active] 349101001211 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 349101001212 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 349101001213 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 349101001214 dimerization interface [polypeptide binding]; other site 349101001215 active site 349101001216 metal binding site [ion binding]; metal-binding site 349101001217 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 349101001218 dsRNA binding site [nucleotide binding]; other site 349101001219 GTPase Era; Reviewed; Region: era; PRK00089 349101001220 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 349101001221 G1 box; other site 349101001222 GTP/Mg2+ binding site [chemical binding]; other site 349101001223 Switch I region; other site 349101001224 G2 box; other site 349101001225 Switch II region; other site 349101001226 G3 box; other site 349101001227 G4 box; other site 349101001228 G5 box; other site 349101001229 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; cl00098 349101001230 Protein of unknown function (DUF1491); Region: DUF1491; cl11568 349101001231 Recombination protein O N terminal; Region: RecO_N; cl15812 349101001232 Recombination protein O C terminal; Region: RecO_C; pfam02565 349101001233 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 349101001234 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349101001235 active site 349101001236 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 349101001237 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 349101001238 active site 349101001239 substrate-binding site [chemical binding]; other site 349101001240 metal-binding site [ion binding] 349101001241 ATP binding site [chemical binding]; other site 349101001242 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 349101001243 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 349101001244 active site 349101001245 phosphorylation site [posttranslational modification] 349101001246 intermolecular recognition site; other site 349101001247 dimerization interface [polypeptide binding]; other site 349101001248 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 349101001249 DNA binding site [nucleotide binding] 349101001250 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 349101001251 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 349101001252 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 349101001253 dimer interface [polypeptide binding]; other site 349101001254 phosphorylation site [posttranslational modification] 349101001255 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 349101001256 ATP binding site [chemical binding]; other site 349101001257 Mg2+ binding site [ion binding]; other site 349101001258 G-X-G motif; other site 349101001259 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 349101001260 Hpr binding site; other site 349101001261 active site 349101001262 homohexamer subunit interaction site [polypeptide binding]; other site 349101001263 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 349101001264 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 349101001265 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 349101001266 active pocket/dimerization site; other site 349101001267 active site 349101001268 phosphorylation site [posttranslational modification] 349101001269 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 349101001270 dimerization domain swap beta strand [polypeptide binding]; other site 349101001271 regulatory protein interface [polypeptide binding]; other site 349101001272 active site 349101001273 regulatory phosphorylation site [posttranslational modification]; other site 349101001274 OpgC protein; Region: OpgC_C; cl00792 349101001275 Acyltransferase family; Region: Acyl_transf_3; pfam01757 349101001276 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 349101001277 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101001278 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 349101001279 nuclear protein UL24; Provisional; Region: PHA03219 349101001280 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 349101001281 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 349101001282 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 349101001283 Ligand binding site [chemical binding]; other site 349101001284 Electron transfer flavoprotein domain; Region: ETF; pfam01012 349101001285 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 349101001286 short chain dehydrogenase; Validated; Region: PRK06182 349101001287 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 349101001288 NADP binding site [chemical binding]; other site 349101001289 active site 349101001290 steroid binding site; other site 349101001291 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase precursor protein; Reviewed; Region: PRK11907 349101001292 Bacterial SH3 domain; Region: SH3_3; cl02551 349101001293 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 349101001294 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 349101001295 CAP-like domain; other site 349101001296 active site 349101001297 primary dimer interface [polypeptide binding]; other site 349101001298 elongation factor Tu; Reviewed; Region: PRK00049 349101001299 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 349101001300 G1 box; other site 349101001301 GEF interaction site [polypeptide binding]; other site 349101001302 GTP/Mg2+ binding site [chemical binding]; other site 349101001303 Switch I region; other site 349101001304 G2 box; other site 349101001305 G3 box; other site 349101001306 Switch II region; other site 349101001307 G4 box; other site 349101001308 G5 box; other site 349101001309 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 349101001310 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 349101001311 Antibiotic Binding Site [chemical binding]; other site 349101001312 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 349101001313 trimer interface [polypeptide binding]; other site 349101001314 active site 349101001315 substrate binding site [chemical binding]; other site 349101001316 CoA binding site [chemical binding]; other site 349101001317 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 349101001318 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 349101001319 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 349101001320 putative homodimer interface [polypeptide binding]; other site 349101001321 KOW motif; Region: KOW; cl00354 349101001322 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 349101001323 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 349101001324 23S rRNA interface [nucleotide binding]; other site 349101001325 L7/L12 interface [polypeptide binding]; other site 349101001326 putative thiostrepton binding site; other site 349101001327 L25 interface [polypeptide binding]; other site 349101001328 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 349101001329 mRNA/rRNA interface [nucleotide binding]; other site 349101001330 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 349101001331 23S rRNA interface [nucleotide binding]; other site 349101001332 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 349101001333 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 349101001334 core dimer interface [polypeptide binding]; other site 349101001335 peripheral dimer interface [polypeptide binding]; other site 349101001336 L10 interface [polypeptide binding]; other site 349101001337 L11 interface [polypeptide binding]; other site 349101001338 putative EF-Tu interaction site [polypeptide binding]; other site 349101001339 putative EF-G interaction site [polypeptide binding]; other site 349101001340 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 349101001341 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 349101001342 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 349101001343 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 349101001344 RPB11 interaction site [polypeptide binding]; other site 349101001345 RPB12 interaction site [polypeptide binding]; other site 349101001346 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 349101001347 RPB1 interaction site [polypeptide binding]; other site 349101001348 RPB11 interaction site [polypeptide binding]; other site 349101001349 RPB10 interaction site [polypeptide binding]; other site 349101001350 RPB3 interaction site [polypeptide binding]; other site 349101001351 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 349101001352 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 349101001353 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 349101001354 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 349101001355 DNA-directed RNA polymerase, beta'' subunit; Region: rpoC2_cyan; TIGR02388 349101001356 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 349101001357 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 349101001358 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 349101001359 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 349101001360 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 349101001361 DNA binding site [nucleotide binding] 349101001362 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 349101001363 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 349101001364 S17 interaction site [polypeptide binding]; other site 349101001365 S8 interaction site; other site 349101001366 16S rRNA interaction site [nucleotide binding]; other site 349101001367 streptomycin interaction site [chemical binding]; other site 349101001368 23S rRNA interaction site [nucleotide binding]; other site 349101001369 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 349101001370 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 349101001371 elongation factor G; Reviewed; Region: PRK00007 349101001372 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 349101001373 G1 box; other site 349101001374 putative GEF interaction site [polypeptide binding]; other site 349101001375 GTP/Mg2+ binding site [chemical binding]; other site 349101001376 Switch I region; other site 349101001377 G2 box; other site 349101001378 G3 box; other site 349101001379 Switch II region; other site 349101001380 G4 box; other site 349101001381 G5 box; other site 349101001382 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 349101001383 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 349101001384 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 349101001385 elongation factor Tu; Reviewed; Region: PRK00049 349101001386 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 349101001387 G1 box; other site 349101001388 GEF interaction site [polypeptide binding]; other site 349101001389 GTP/Mg2+ binding site [chemical binding]; other site 349101001390 Switch I region; other site 349101001391 G2 box; other site 349101001392 G3 box; other site 349101001393 Switch II region; other site 349101001394 G4 box; other site 349101001395 G5 box; other site 349101001396 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 349101001397 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 349101001398 Antibiotic Binding Site [chemical binding]; other site 349101001399 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 349101001400 trimer interface [polypeptide binding]; other site 349101001401 active site 349101001402 substrate binding site [chemical binding]; other site 349101001403 CoA binding site [chemical binding]; other site 349101001404 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 349101001405 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 349101001406 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 349101001407 putative homodimer interface [polypeptide binding]; other site 349101001408 KOW motif; Region: KOW; cl00354 349101001409 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 349101001410 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 349101001411 23S rRNA interface [nucleotide binding]; other site 349101001412 L7/L12 interface [polypeptide binding]; other site 349101001413 putative thiostrepton binding site; other site 349101001414 L25 interface [polypeptide binding]; other site 349101001415 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 349101001416 mRNA/rRNA interface [nucleotide binding]; other site 349101001417 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 349101001418 23S rRNA interface [nucleotide binding]; other site 349101001419 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 349101001420 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 349101001421 core dimer interface [polypeptide binding]; other site 349101001422 peripheral dimer interface [polypeptide binding]; other site 349101001423 L10 interface [polypeptide binding]; other site 349101001424 L11 interface [polypeptide binding]; other site 349101001425 putative EF-Tu interaction site [polypeptide binding]; other site 349101001426 putative EF-G interaction site [polypeptide binding]; other site 349101001427 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 349101001428 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 349101001429 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 349101001430 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 349101001431 RPB11 interaction site [polypeptide binding]; other site 349101001432 RPB12 interaction site [polypeptide binding]; other site 349101001433 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 349101001434 RPB1 interaction site [polypeptide binding]; other site 349101001435 RPB11 interaction site [polypeptide binding]; other site 349101001436 RPB10 interaction site [polypeptide binding]; other site 349101001437 RPB3 interaction site [polypeptide binding]; other site 349101001438 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 349101001439 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 349101001440 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 349101001441 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 349101001442 DNA-directed RNA polymerase, beta'' subunit; Region: rpoC2_cyan; TIGR02388 349101001443 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 349101001444 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 349101001445 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 349101001446 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 349101001447 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 349101001448 DNA binding site [nucleotide binding] 349101001449 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 349101001450 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 349101001451 S17 interaction site [polypeptide binding]; other site 349101001452 S8 interaction site; other site 349101001453 16S rRNA interaction site [nucleotide binding]; other site 349101001454 streptomycin interaction site [chemical binding]; other site 349101001455 23S rRNA interaction site [nucleotide binding]; other site 349101001456 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 349101001457 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 349101001458 elongation factor G; Reviewed; Region: PRK00007 349101001459 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 349101001460 G1 box; other site 349101001461 putative GEF interaction site [polypeptide binding]; other site 349101001462 GTP/Mg2+ binding site [chemical binding]; other site 349101001463 Switch I region; other site 349101001464 G2 box; other site 349101001465 G3 box; other site 349101001466 Switch II region; other site 349101001467 G4 box; other site 349101001468 G5 box; other site 349101001469 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 349101001470 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 349101001471 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 349101001472 elongation factor Tu; Reviewed; Region: PRK00049 349101001473 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 349101001474 G1 box; other site 349101001475 GEF interaction site [polypeptide binding]; other site 349101001476 GTP/Mg2+ binding site [chemical binding]; other site 349101001477 Switch I region; other site 349101001478 G2 box; other site 349101001479 G3 box; other site 349101001480 Switch II region; other site 349101001481 G4 box; other site 349101001482 G5 box; other site 349101001483 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 349101001484 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 349101001485 Antibiotic Binding Site [chemical binding]; other site 349101001486 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 349101001487 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 349101001488 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 349101001489 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 349101001490 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 349101001491 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 349101001492 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 349101001493 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 349101001494 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 349101001495 putative translocon binding site; other site 349101001496 protein-rRNA interface [nucleotide binding]; other site 349101001497 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 349101001498 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 349101001499 G-X-X-G motif; other site 349101001500 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 349101001501 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 349101001502 5S rRNA interface [nucleotide binding]; other site 349101001503 23S rRNA interface [nucleotide binding]; other site 349101001504 putative antibiotic binding site [chemical binding]; other site 349101001505 L25 interface [polypeptide binding]; other site 349101001506 L27 interface [polypeptide binding]; other site 349101001507 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 349101001508 23S rRNA interface [nucleotide binding]; other site 349101001509 putative translocon interaction site; other site 349101001510 signal recognition particle (SRP54) interaction site; other site 349101001511 L23 interface [polypeptide binding]; other site 349101001512 trigger factor interaction site; other site 349101001513 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 349101001514 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 349101001515 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 349101001516 KOW motif; Region: KOW; cl00354 349101001517 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 349101001518 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 349101001519 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 349101001520 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 349101001521 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 349101001522 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 349101001523 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 349101001524 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 349101001525 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 349101001526 5S rRNA interface [nucleotide binding]; other site 349101001527 23S rRNA interface [nucleotide binding]; other site 349101001528 L5 interface [polypeptide binding]; other site 349101001529 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 349101001530 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 349101001531 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 349101001532 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 349101001533 23S rRNA binding site [nucleotide binding]; other site 349101001534 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 349101001535 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 349101001536 SecY translocase; Region: SecY; pfam00344 349101001537 adenylate kinase; Reviewed; Region: adk; PRK00279 349101001538 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 349101001539 AMP-binding site [chemical binding]; other site 349101001540 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 349101001541 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 349101001542 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 349101001543 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 349101001544 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 349101001545 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 349101001546 alphaNTD - beta interaction site [polypeptide binding]; other site 349101001547 alphaNTD homodimer interface [polypeptide binding]; other site 349101001548 alphaNTD - beta' interaction site [polypeptide binding]; other site 349101001549 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 349101001550 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 349101001551 Autoinducer binding domain; Region: Autoind_bind; pfam03472 349101001552 Helix-turn-helix domains; Region: HTH; cl00088 349101001553 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 349101001554 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 349101001555 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 349101001556 protein binding site [polypeptide binding]; other site 349101001557 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 349101001558 protein binding site [polypeptide binding]; other site 349101001559 recombination factor protein RarA; Reviewed; Region: PRK13342 349101001560 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 349101001561 ATP binding site [chemical binding]; other site 349101001562 Walker A motif; other site 349101001563 Walker B motif; other site 349101001564 arginine finger; other site 349101001565 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 349101001566 CrcB-like protein; Region: CRCB; cl09114 349101001567 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 349101001568 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 349101001569 RNA binding surface [nucleotide binding]; other site 349101001570 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 349101001571 active site 349101001572 ATP12 chaperone protein; Region: ATP12; cl02228 349101001573 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 349101001574 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 349101001575 substrate binding pocket [chemical binding]; other site 349101001576 membrane-bound complex binding site; other site 349101001577 hinge residues; other site 349101001578 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 349101001579 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349101001580 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 349101001581 putative PBP binding loops; other site 349101001582 dimer interface [polypeptide binding]; other site 349101001583 ABC-ATPase subunit interface; other site 349101001584 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349101001585 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 349101001586 dimer interface [polypeptide binding]; other site 349101001587 conserved gate region; other site 349101001588 putative PBP binding loops; other site 349101001589 ABC-ATPase subunit interface; other site 349101001590 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349101001591 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 349101001592 Walker A/P-loop; other site 349101001593 ATP binding site [chemical binding]; other site 349101001594 Q-loop/lid; other site 349101001595 ABC transporter signature motif; other site 349101001596 Walker B; other site 349101001597 D-loop; other site 349101001598 H-loop/switch region; other site 349101001599 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 349101001600 catalytic loop [active] 349101001601 iron binding site [ion binding]; other site 349101001602 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 349101001603 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 349101001604 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 349101001605 active site 349101001606 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 349101001607 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 349101001608 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 349101001609 Cupin domain; Region: Cupin_2; cl09118 349101001610 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 349101001611 oligomerization interface [polypeptide binding]; other site 349101001612 active site 349101001613 metal binding site [ion binding]; metal-binding site 349101001614 pantoate--beta-alanine ligase; Region: panC; TIGR00018 349101001615 Pantoate-beta-alanine ligase; Region: PanC; cd00560 349101001616 active site 349101001617 ATP-binding site [chemical binding]; other site 349101001618 pantoate-binding site; other site 349101001619 HXXH motif; other site 349101001620 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13013 349101001621 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 349101001622 metal binding site [ion binding]; metal-binding site 349101001623 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 349101001624 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 349101001625 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 349101001626 putative tRNA-binding site [nucleotide binding]; other site 349101001627 B3/4 domain; Region: B3_4; cl11458 349101001628 tRNA synthetase B5 domain; Region: B5; cl08394 349101001629 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 349101001630 dimer interface [polypeptide binding]; other site 349101001631 motif 1; other site 349101001632 motif 3; other site 349101001633 motif 2; other site 349101001634 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 349101001635 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 349101001636 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 349101001637 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 349101001638 dimer interface [polypeptide binding]; other site 349101001639 motif 1; other site 349101001640 active site 349101001641 motif 2; other site 349101001642 motif 3; other site 349101001643 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 349101001644 23S rRNA binding site [nucleotide binding]; other site 349101001645 L21 binding site [polypeptide binding]; other site 349101001646 L13 binding site [polypeptide binding]; other site 349101001647 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 349101001648 pyruvate kinase; Provisional; Region: PRK06247 349101001649 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 349101001650 domain interfaces; other site 349101001651 active site 349101001652 N-formylglutamate amidohydrolase; Region: FGase; cl01522 349101001653 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 349101001654 homodimer interface [polypeptide binding]; other site 349101001655 substrate-cofactor binding pocket; other site 349101001656 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101001657 catalytic residue [active] 349101001658 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 349101001659 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 349101001660 active site 349101001661 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 349101001662 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 349101001663 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 349101001664 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 349101001665 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 349101001666 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 349101001667 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 349101001668 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 349101001669 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 349101001670 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 349101001671 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 349101001672 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 349101001673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101001674 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 349101001675 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 349101001676 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 349101001677 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 349101001678 TPR motif; other site 349101001679 binding surface 349101001680 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 349101001681 binding surface 349101001682 TPR motif; other site 349101001683 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 349101001684 binding surface 349101001685 TPR motif; other site 349101001686 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 349101001687 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 349101001688 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 349101001689 response regulator; Provisional; Region: PRK13435 349101001690 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349101001691 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349101001692 DNA binding site [nucleotide binding] 349101001693 domain linker motif; other site 349101001694 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_4; cd06280 349101001695 putative dimerization interface [polypeptide binding]; other site 349101001696 putative ligand binding site [chemical binding]; other site 349101001697 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 349101001698 active site 349101001699 phosphorylation site [posttranslational modification] 349101001700 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 349101001701 dimerization domain swap beta strand [polypeptide binding]; other site 349101001702 regulatory protein interface [polypeptide binding]; other site 349101001703 active site 349101001704 regulatory phosphorylation site [posttranslational modification]; other site 349101001705 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 349101001706 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 349101001707 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 349101001708 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 349101001709 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 349101001710 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 349101001711 putative substrate binding site [chemical binding]; other site 349101001712 putative ATP binding site [chemical binding]; other site 349101001713 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 349101001714 active site 349101001715 P-loop; other site 349101001716 phosphorylation site [posttranslational modification] 349101001717 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 349101001718 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 349101001719 active site 349101001720 P-loop; other site 349101001721 phosphorylation site [posttranslational modification] 349101001722 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 349101001723 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 349101001724 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 349101001725 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 349101001726 DNA binding residues [nucleotide binding] 349101001727 dimer interface [polypeptide binding]; other site 349101001728 putative metal binding site [ion binding]; other site 349101001729 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 349101001730 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 349101001731 metal-binding site [ion binding] 349101001732 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349101001733 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 349101001734 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 349101001735 dimer interface [polypeptide binding]; other site 349101001736 ssDNA binding site [nucleotide binding]; other site 349101001737 tetramer (dimer of dimers) interface [polypeptide binding]; other site 349101001738 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 349101001739 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349101001740 catalytic residue [active] 349101001741 seryl-tRNA synthetase; Provisional; Region: PRK05431 349101001742 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 349101001743 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 349101001744 dimer interface [polypeptide binding]; other site 349101001745 active site 349101001746 motif 1; other site 349101001747 motif 2; other site 349101001748 motif 3; other site 349101001749 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 349101001750 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 349101001751 E-class dimer interface [polypeptide binding]; other site 349101001752 P-class dimer interface [polypeptide binding]; other site 349101001753 active site 349101001754 Cu2+ binding site [ion binding]; other site 349101001755 Zn2+ binding site [ion binding]; other site 349101001756 Preprotein translocase subunit; Region: YajC; cl00806 349101001757 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 349101001758 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 349101001759 Protein export membrane protein; Region: SecD_SecF; cl14618 349101001760 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 349101001761 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 349101001762 Protein export membrane protein; Region: SecD_SecF; cl14618 349101001763 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 349101001764 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 349101001765 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101001766 Walker A/P-loop; other site 349101001767 ATP binding site [chemical binding]; other site 349101001768 Q-loop/lid; other site 349101001769 ABC transporter signature motif; other site 349101001770 Walker B; other site 349101001771 D-loop; other site 349101001772 H-loop/switch region; other site 349101001773 CcmB protein; Region: CcmB; cl01016 349101001774 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 349101001775 Heme exporter protein D (CcmD); Region: CcmD; cl11475 349101001776 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 349101001777 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 349101001778 catalytic residues [active] 349101001779 central insert; other site 349101001780 aconitate hydratase; Validated; Region: PRK09277 349101001781 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 349101001782 substrate binding site [chemical binding]; other site 349101001783 ligand binding site [chemical binding]; other site 349101001784 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 349101001785 substrate binding site [chemical binding]; other site 349101001786 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 349101001787 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 349101001788 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 349101001789 active site 349101001790 HIGH motif; other site 349101001791 dimer interface [polypeptide binding]; other site 349101001792 KMSKS motif; other site 349101001793 Rhomboid family; Region: Rhomboid; cl11446 349101001794 integral membrane protein MviN; Region: mviN; TIGR01695 349101001795 PII uridylyl-transferase; Provisional; Region: PRK05092 349101001796 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 349101001797 metal binding triad; other site 349101001798 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 349101001799 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 349101001800 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 349101001801 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 349101001802 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 349101001803 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 349101001804 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 349101001805 putative ligand binding site [chemical binding]; other site 349101001806 Predicted methyltransferases [General function prediction only]; Region: COG0313 349101001807 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 349101001808 Restriction endonuclease; Region: Mrr_cat; cl00516 349101001809 glutathione synthetase; Provisional; Region: PRK05246 349101001810 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 349101001811 ATP-grasp domain; Region: ATP-grasp_4; cl03087 349101001812 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 349101001813 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 349101001814 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 349101001815 Walker A motif; other site 349101001816 ATP binding site [chemical binding]; other site 349101001817 Walker B motif; other site 349101001818 arginine finger; other site 349101001819 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 349101001820 Helix-turn-helix domains; Region: HTH; cl00088 349101001821 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 349101001822 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 349101001823 G1 box; other site 349101001824 GTP/Mg2+ binding site [chemical binding]; other site 349101001825 Switch I region; other site 349101001826 G2 box; other site 349101001827 G3 box; other site 349101001828 Switch II region; other site 349101001829 G4 box; other site 349101001830 G5 box; other site 349101001831 Nucleoside recognition; Region: Gate; cl00486 349101001832 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 349101001833 FeoA domain; Region: FeoA; cl00838 349101001834 FeoA domain; Region: FeoA; cl00838 349101001835 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 349101001836 dimerization interface [polypeptide binding]; other site 349101001837 metal binding site [ion binding]; metal-binding site 349101001838 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 349101001839 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 349101001840 putative molybdopterin cofactor binding site [chemical binding]; other site 349101001841 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 349101001842 putative molybdopterin cofactor binding site; other site 349101001843 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 349101001844 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 349101001845 Ligand Binding Site [chemical binding]; other site 349101001846 Competence-damaged protein; Region: CinA; cl00666 349101001847 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 349101001848 MPT binding site; other site 349101001849 trimer interface [polypeptide binding]; other site 349101001850 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 349101001851 Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase); Region: liver_ADH_like1; cd08281 349101001852 NAD binding site [chemical binding]; other site 349101001853 catalytic Zn binding site [ion binding]; other site 349101001854 substrate binding site [chemical binding]; other site 349101001855 structural Zn binding site [ion binding]; other site 349101001856 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 349101001857 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 349101001858 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 349101001859 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 349101001860 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 349101001861 UbiA prenyltransferase family; Region: UbiA; cl00337 349101001862 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 349101001863 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 349101001864 Subunit III/VIIa interface [polypeptide binding]; other site 349101001865 Phospholipid binding site [chemical binding]; other site 349101001866 Subunit I/III interface [polypeptide binding]; other site 349101001867 Subunit III/VIb interface [polypeptide binding]; other site 349101001868 Subunit III/VIa interface; other site 349101001869 Subunit III/Vb interface [polypeptide binding]; other site 349101001870 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 349101001871 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 349101001872 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 349101001873 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101001874 catalytic residue [active] 349101001875 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 349101001876 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 349101001877 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 349101001878 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349101001879 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 349101001880 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349101001881 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 349101001882 FAD binding domain; Region: FAD_binding_4; pfam01565 349101001883 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349101001884 active site 349101001885 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 349101001886 Flavin Reductases; Region: FlaRed; cl00801 349101001887 Predicted acetyltransferase [General function prediction only]; Region: COG3153 349101001888 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349101001889 Coenzyme A binding pocket [chemical binding]; other site 349101001890 Intracellular septation protein A; Region: IspA; cl01098 349101001891 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 349101001892 EamA-like transporter family; Region: EamA; cl01037 349101001893 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 349101001894 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 349101001895 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 349101001896 P loop; other site 349101001897 GTP binding site [chemical binding]; other site 349101001898 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 349101001899 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 349101001900 generic binding surface II; other site 349101001901 generic binding surface I; other site 349101001902 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 349101001903 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 349101001904 ATP-grasp domain; Region: ATP-grasp_4; cl03087 349101001905 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 349101001906 pyruvate kinase; Validated; Region: PRK08187 349101001907 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 349101001908 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 349101001909 domain interfaces; other site 349101001910 active site 349101001911 aspartate kinase; Reviewed; Region: PRK06635 349101001912 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 349101001913 putative nucleotide binding site [chemical binding]; other site 349101001914 putative catalytic residues [active] 349101001915 putative Mg ion binding site [ion binding]; other site 349101001916 putative aspartate binding site [chemical binding]; other site 349101001917 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 349101001918 putative allosteric regulatory site; other site 349101001919 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 349101001920 putative allosteric regulatory residue; other site 349101001921 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 349101001922 GAF domain; Region: GAF; cl15785 349101001923 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 349101001924 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 349101001925 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 349101001926 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 349101001927 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 349101001928 homodimer interface [polypeptide binding]; other site 349101001929 substrate-cofactor binding pocket; other site 349101001930 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101001931 catalytic residue [active] 349101001932 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 349101001933 Cation transport protein; Region: TrkH; cl10514 349101001934 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 349101001935 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 349101001936 Cation transport protein; Region: TrkH; cl10514 349101001937 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 349101001938 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 349101001939 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 349101001940 dimer interface [polypeptide binding]; other site 349101001941 motif 1; other site 349101001942 active site 349101001943 motif 2; other site 349101001944 motif 3; other site 349101001945 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 349101001946 Phosphoenolpyruvate synthase/pyruvate phosphate dikinase [Carbohydrate transport and metabolism]; Region: PpsA; COG0574 349101001947 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 349101001948 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 349101001949 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 349101001950 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 349101001951 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 349101001952 active site 349101001953 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 349101001954 dihydropteroate synthase; Region: DHPS; TIGR01496 349101001955 substrate binding pocket [chemical binding]; other site 349101001956 dimer interface [polypeptide binding]; other site 349101001957 inhibitor binding site; inhibition site 349101001958 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 349101001959 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 349101001960 active site 349101001961 substrate binding site [chemical binding]; other site 349101001962 metal binding site [ion binding]; metal-binding site 349101001963 ketol-acid reductoisomerase; Provisional; Region: PRK05479 349101001964 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101001965 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 349101001966 Helix-turn-helix domains; Region: HTH; cl00088 349101001967 AsnC family; Region: AsnC_trans_reg; pfam01037 349101001968 Helix-turn-helix domains; Region: HTH; cl00088 349101001969 AsnC family; Region: AsnC_trans_reg; pfam01037 349101001970 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 349101001971 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349101001972 catalytic residue [active] 349101001973 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 349101001974 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101001975 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 349101001976 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 349101001977 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101001978 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 349101001979 DNA-binding site [nucleotide binding]; DNA binding site 349101001980 FCD domain; Region: FCD; cl11656 349101001981 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 349101001982 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 349101001983 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 349101001984 active site 349101001985 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 349101001986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 349101001987 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 349101001988 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 349101001989 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 349101001990 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 349101001991 catalytic site [active] 349101001992 subunit interface [polypeptide binding]; other site 349101001993 GatB domain; Region: GatB_Yqey; cl11497 349101001994 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 349101001995 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 349101001996 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 349101001997 Subunit I/III interface [polypeptide binding]; other site 349101001998 D-pathway; other site 349101001999 Subunit I/VIIc interface [polypeptide binding]; other site 349101002000 Subunit I/IV interface [polypeptide binding]; other site 349101002001 Subunit I/II interface [polypeptide binding]; other site 349101002002 Low-spin heme (heme a) binding site [chemical binding]; other site 349101002003 Subunit I/VIIa interface [polypeptide binding]; other site 349101002004 Subunit I/VIa interface [polypeptide binding]; other site 349101002005 Dimer interface; other site 349101002006 Putative water exit pathway; other site 349101002007 Binuclear center (heme a3/CuB) [ion binding]; other site 349101002008 K-pathway; other site 349101002009 Subunit I/Vb interface [polypeptide binding]; other site 349101002010 Putative proton exit pathway; other site 349101002011 Subunit I/VIb interface; other site 349101002012 Subunit I/VIc interface [polypeptide binding]; other site 349101002013 Electron transfer pathway; other site 349101002014 Subunit I/VIIIb interface [polypeptide binding]; other site 349101002015 Subunit I/VIIb interface [polypeptide binding]; other site 349101002016 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 349101002017 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 349101002018 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349101002019 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 349101002020 Walker A/P-loop; other site 349101002021 ATP binding site [chemical binding]; other site 349101002022 Q-loop/lid; other site 349101002023 ABC transporter signature motif; other site 349101002024 Walker B; other site 349101002025 D-loop; other site 349101002026 H-loop/switch region; other site 349101002027 TOBE domain; Region: TOBE_2; cl01440 349101002028 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 349101002029 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101002030 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 349101002031 dimer interface [polypeptide binding]; other site 349101002032 conserved gate region; other site 349101002033 putative PBP binding loops; other site 349101002034 ABC-ATPase subunit interface; other site 349101002035 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 349101002036 putative PBP binding loops; other site 349101002037 dimer interface [polypeptide binding]; other site 349101002038 ABC-ATPase subunit interface; other site 349101002039 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 349101002040 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349101002041 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 349101002042 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349101002043 Helix-turn-helix domains; Region: HTH; cl00088 349101002044 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101002045 dimerization interface [polypeptide binding]; other site 349101002046 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 349101002047 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 349101002048 NAD(P) binding site [chemical binding]; other site 349101002049 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 349101002050 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 349101002051 non-specific DNA binding site [nucleotide binding]; other site 349101002052 salt bridge; other site 349101002053 sequence-specific DNA binding site [nucleotide binding]; other site 349101002054 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 349101002055 active site 349101002056 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 349101002057 putative mechanosensitive channel protein; Provisional; Region: PRK11465 349101002058 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 349101002059 Mechanosensitive ion channel; Region: MS_channel; pfam00924 349101002060 guanine deaminase; Provisional; Region: PRK09228 349101002061 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 349101002062 active site 349101002063 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 349101002064 MgtE intracellular N domain; Region: MgtE_N; cl15244 349101002065 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 349101002066 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 349101002067 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 349101002068 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101002069 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 349101002070 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 349101002071 binding surface 349101002072 TPR motif; other site 349101002073 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 349101002074 TPR motif; other site 349101002075 binding surface 349101002076 TPR repeat; Region: TPR_11; pfam13414 349101002077 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 349101002078 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 349101002079 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 349101002080 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 349101002081 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 349101002082 ATP binding site [chemical binding]; other site 349101002083 Walker A motif; other site 349101002084 hexamer interface [polypeptide binding]; other site 349101002085 Walker B motif; other site 349101002086 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 349101002087 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 349101002088 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101002089 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349101002090 ligand binding site [chemical binding]; other site 349101002091 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 349101002092 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 349101002093 BON domain; Region: BON; cl02771 349101002094 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 349101002095 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 349101002096 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 349101002097 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349101002098 catalytic residue [active] 349101002099 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349101002100 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 349101002101 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 349101002102 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 349101002103 Helix-turn-helix domains; Region: HTH; cl00088 349101002104 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101002105 dimerization interface [polypeptide binding]; other site 349101002106 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349101002107 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 349101002108 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 349101002109 putative catalytic residue [active] 349101002110 Cupin domain; Region: Cupin_2; cl09118 349101002111 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 349101002112 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101002113 AAA domain; Region: AAA_28; pfam13521 349101002114 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 349101002115 pyridoxal binding site [chemical binding]; other site 349101002116 dimer interface [polypeptide binding]; other site 349101002117 ATP binding site [chemical binding]; other site 349101002118 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 349101002119 MOSC domain; Region: MOSC; pfam03473 349101002120 3-alpha domain; Region: 3-alpha; pfam03475 349101002121 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 349101002122 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101002123 DNA-binding site [nucleotide binding]; DNA binding site 349101002124 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 349101002125 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101002126 homodimer interface [polypeptide binding]; other site 349101002127 catalytic residue [active] 349101002128 biotin synthase; Region: bioB; TIGR00433 349101002129 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 349101002130 FeS/SAM binding site; other site 349101002131 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 349101002132 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 349101002133 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101002134 DNA-binding site [nucleotide binding]; DNA binding site 349101002135 FCD domain; Region: FCD; cl11656 349101002136 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 349101002137 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 349101002138 FMN binding site [chemical binding]; other site 349101002139 active site 349101002140 catalytic residues [active] 349101002141 substrate binding site [chemical binding]; other site 349101002142 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 349101002143 replicative DNA helicase; Provisional; Region: PRK09165 349101002144 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 349101002145 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 349101002146 Walker A motif; other site 349101002147 ATP binding site [chemical binding]; other site 349101002148 Walker B motif; other site 349101002149 DNA binding loops [nucleotide binding] 349101002150 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349101002151 active site 349101002152 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 349101002153 active site 349101002154 substrate binding pocket [chemical binding]; other site 349101002155 dimer interface [polypeptide binding]; other site 349101002156 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 349101002157 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 349101002158 Walker A motif; other site 349101002159 ATP binding site [chemical binding]; other site 349101002160 Walker B motif; other site 349101002161 arginine finger; other site 349101002162 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 349101002163 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 349101002164 metal ion-dependent adhesion site (MIDAS); other site 349101002165 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349101002166 ligand binding site [chemical binding]; other site 349101002167 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 349101002168 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 349101002169 XdhC Rossmann domain; Region: XdhC_C; pfam13478 349101002170 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 349101002171 putative MPT binding site; other site 349101002172 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 349101002173 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 349101002174 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 349101002175 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 349101002176 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 349101002177 FAD binding pocket [chemical binding]; other site 349101002178 FAD binding motif [chemical binding]; other site 349101002179 phosphate binding motif [ion binding]; other site 349101002180 beta-alpha-beta structure motif; other site 349101002181 NAD binding pocket [chemical binding]; other site 349101002182 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 349101002183 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 349101002184 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 349101002185 Active Sites [active] 349101002186 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 349101002187 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 349101002188 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 349101002189 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 349101002190 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 349101002191 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 349101002192 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 349101002193 Helix-turn-helix domains; Region: HTH; cl00088 349101002194 AsnC family; Region: AsnC_trans_reg; pfam01037 349101002195 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 349101002196 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 349101002197 substrate binding site [chemical binding]; other site 349101002198 dimer interface [polypeptide binding]; other site 349101002199 catalytic triad [active] 349101002200 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 349101002201 Domain of unknown function DUF59; Region: DUF59; cl00941 349101002202 Protein of unknown function (DUF982); Region: DUF982; pfam06169 349101002203 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 349101002204 DNA-binding site [nucleotide binding]; DNA binding site 349101002205 RNA-binding motif; other site 349101002206 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 349101002207 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349101002208 ligand binding site [chemical binding]; other site 349101002209 Helix-turn-helix domains; Region: HTH; cl00088 349101002210 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 349101002211 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 349101002212 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 349101002213 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 349101002214 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349101002215 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 349101002216 active site 349101002217 catalytic residues [active] 349101002218 DNA binding site [nucleotide binding] 349101002219 Int/Topo IB signature motif; other site 349101002220 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cd00413 349101002221 active site 349101002222 catalytic residues [active] 349101002223 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 349101002224 catalytic residue [active] 349101002225 Putative phage tail protein; Region: Phage-tail_3; pfam13550 349101002226 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 349101002227 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 349101002228 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 349101002229 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 349101002230 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 349101002231 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 349101002232 Phage capsid family; Region: Phage_capsid; pfam05065 349101002233 Clp protease; Region: CLP_protease; pfam00574 349101002234 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 349101002235 oligomer interface [polypeptide binding]; other site 349101002236 active site residues [active] 349101002237 Phage-related protein [Function unknown]; Region: COG4695; cl01923 349101002238 Phage portal protein; Region: Phage_portal; pfam04860 349101002239 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 349101002240 Phage Terminase; Region: Terminase_1; pfam03354 349101002241 Phage terminase, small subunit; Region: Terminase_4; cl01525 349101002242 ParB-like nuclease domain; Region: ParBc; cl02129 349101002243 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 349101002244 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; cl16911 349101002245 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 349101002246 active site 349101002247 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 349101002248 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 349101002249 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 349101002250 MT-A70; Region: MT-A70; cl01947 349101002251 Helix-turn-helix domains; Region: HTH; cl00088 349101002252 DNA-binding interface [nucleotide binding]; DNA binding site 349101002253 Endodeoxyribonuclease RusA; Region: RusA; cl01885 349101002254 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 349101002255 non-specific DNA binding site [nucleotide binding]; other site 349101002256 salt bridge; other site 349101002257 sequence-specific DNA binding site [nucleotide binding]; other site 349101002258 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 349101002259 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 349101002260 Arc-like DNA binding domain; Region: Arc; pfam03869 349101002261 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 349101002262 active site 349101002263 catalytic residues [active] 349101002264 DNA binding site [nucleotide binding] 349101002265 Int/Topo IB signature motif; other site 349101002266 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 349101002267 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 349101002268 dimerization interface [polypeptide binding]; other site 349101002269 putative ATP binding site [chemical binding]; other site 349101002270 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 349101002271 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 349101002272 active site 349101002273 substrate binding site [chemical binding]; other site 349101002274 cosubstrate binding site; other site 349101002275 catalytic site [active] 349101002276 ribonuclease D; Region: rnd; TIGR01388 349101002277 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 349101002278 catalytic site [active] 349101002279 putative active site [active] 349101002280 putative substrate binding site [chemical binding]; other site 349101002281 HRDC domain; Region: HRDC; cl02578 349101002282 Fe-S metabolism associated domain; Region: SufE; cl00951 349101002283 Domain of unknown function (DUF427); Region: DUF427; cl00998 349101002284 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 349101002285 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 349101002286 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 349101002287 active site 349101002288 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 349101002289 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 349101002290 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 349101002291 metal ion-dependent adhesion site (MIDAS); other site 349101002292 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 349101002293 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 349101002294 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101002295 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 349101002296 HSP70 interaction site [polypeptide binding]; other site 349101002297 BolA-like protein; Region: BolA; cl00386 349101002298 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 349101002299 active site 349101002300 DNA photolyase; Region: DNA_photolyase; pfam00875 349101002301 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 349101002302 aminopeptidase N; Provisional; Region: pepN; PRK14015 349101002303 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 349101002304 Zn binding site [ion binding]; other site 349101002305 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 349101002306 putative acyl-acceptor binding pocket; other site 349101002307 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 349101002308 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 349101002309 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101002310 homodimer interface [polypeptide binding]; other site 349101002311 catalytic residue [active] 349101002312 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 349101002313 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 349101002314 GatB domain; Region: GatB_Yqey; cl11497 349101002315 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 349101002316 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 349101002317 tRNA synthetases class I (I, L, M and V); Region: tRNA-synt_1; pfam00133 349101002318 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 349101002319 HIGH motif; other site 349101002320 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 349101002321 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349101002322 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349101002323 active site 349101002324 KMSKS motif; other site 349101002325 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 349101002326 tRNA binding surface [nucleotide binding]; other site 349101002327 anticodon binding site; other site 349101002328 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 349101002329 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 349101002330 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 349101002331 Helix-turn-helix domains; Region: HTH; cl00088 349101002332 AsnC family; Region: AsnC_trans_reg; pfam01037 349101002333 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 349101002334 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 349101002335 dimer interface [polypeptide binding]; other site 349101002336 active site 349101002337 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349101002338 catalytic residues [active] 349101002339 substrate binding site [chemical binding]; other site 349101002340 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 349101002341 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 349101002342 CoenzymeA binding site [chemical binding]; other site 349101002343 subunit interaction site [polypeptide binding]; other site 349101002344 PHB binding site; other site 349101002345 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 349101002346 dimer interface [polypeptide binding]; other site 349101002347 Citrate synthase; Region: Citrate_synt; pfam00285 349101002348 active site 349101002349 citrylCoA binding site [chemical binding]; other site 349101002350 NADH binding [chemical binding]; other site 349101002351 cationic pore residues; other site 349101002352 oxalacetate/citrate binding site [chemical binding]; other site 349101002353 coenzyme A binding site [chemical binding]; other site 349101002354 catalytic triad [active] 349101002355 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 349101002356 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 349101002357 HIGH motif; other site 349101002358 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 349101002359 active site 349101002360 KMSKS motif; other site 349101002361 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 349101002362 Competence protein; Region: Competence; cl00471 349101002363 Helix-turn-helix domains; Region: HTH; cl00088 349101002364 LexA repressor; Validated; Region: PRK00215 349101002365 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 349101002366 Catalytic site [active] 349101002367 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 349101002368 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 349101002369 dimer interface [polypeptide binding]; other site 349101002370 putative functional site; other site 349101002371 putative MPT binding site; other site 349101002372 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 349101002373 trimer interface [polypeptide binding]; other site 349101002374 dimer interface [polypeptide binding]; other site 349101002375 putative active site [active] 349101002376 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 349101002377 active site 349101002378 ribulose/triose binding site [chemical binding]; other site 349101002379 phosphate binding site [ion binding]; other site 349101002380 substrate (anthranilate) binding pocket [chemical binding]; other site 349101002381 product (indole) binding pocket [chemical binding]; other site 349101002382 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 349101002383 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 349101002384 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 349101002385 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 349101002386 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 349101002387 glutamine binding [chemical binding]; other site 349101002388 catalytic triad [active] 349101002389 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 349101002390 NodB motif; other site 349101002391 putative active site [active] 349101002392 putative catalytic site [active] 349101002393 Zn binding site [ion binding]; other site 349101002394 anthranilate synthase component I; Provisional; Region: PRK13573 349101002395 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 349101002396 chorismate binding enzyme; Region: Chorismate_bind; cl10555 349101002397 SurA N-terminal domain; Region: SurA_N_3; cl07813 349101002398 PPIC-type PPIASE domain; Region: Rotamase; cl08278 349101002399 PPIC-type PPIASE domain; Region: Rotamase; cl08278 349101002400 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 349101002401 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 349101002402 AsmA-like C-terminal region; Region: AsmA_2; cl15864 349101002403 GcrA cell cycle regulator; Region: GcrA; cl11564 349101002404 GcrA cell cycle regulator; Region: GcrA; cl11564 349101002405 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 349101002406 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 349101002407 inhibitor-cofactor binding pocket; inhibition site 349101002408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101002409 catalytic residue [active] 349101002410 ornithine carbamoyltransferase; Provisional; Region: PRK00779 349101002411 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 349101002412 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101002413 transcription elongation factor regulatory protein; Validated; Region: PRK06342 349101002414 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 349101002415 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 349101002416 nudix motif; other site 349101002417 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 349101002418 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 349101002419 ATP binding site [chemical binding]; other site 349101002420 putative Mg++ binding site [ion binding]; other site 349101002421 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101002422 Helicase associated domain (HA2); Region: HA2; cl04503 349101002423 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 349101002424 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 349101002425 membrane ATPase/protein kinase; Provisional; Region: PRK09435 349101002426 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 349101002427 Walker A; other site 349101002428 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 349101002429 Protein of unknown function (DUF461); Region: DUF461; cl01071 349101002430 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 349101002431 Dihaem cytochrome c; Region: DHC; pfam09626 349101002432 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 349101002433 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 349101002434 Dihaem cytochrome c; Region: DHC; pfam09626 349101002435 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 349101002436 DNA-binding site [nucleotide binding]; DNA binding site 349101002437 RNA-binding motif; other site 349101002438 Helix-turn-helix domain; Region: HTH_18; pfam12833 349101002439 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349101002440 Helix-turn-helix domains; Region: HTH; cl00088 349101002441 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 349101002442 putative effector binding pocket; other site 349101002443 putative dimerization interface [polypeptide binding]; other site 349101002444 short chain dehydrogenase; Provisional; Region: PRK06523 349101002445 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101002446 NAD(P) binding site [chemical binding]; other site 349101002447 active site 349101002448 PAS fold; Region: PAS_4; pfam08448 349101002449 hypothetical protein; Provisional; Region: PRK13559 349101002450 Histidine kinase; Region: HisKA_2; cl06527 349101002451 CAAX protease self-immunity; Region: Abi; cl00558 349101002452 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 349101002453 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 349101002454 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349101002455 Coenzyme A binding pocket [chemical binding]; other site 349101002456 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349101002457 classical (c) SDRs; Region: SDR_c; cd05233 349101002458 NAD(P) binding site [chemical binding]; other site 349101002459 active site 349101002460 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 349101002461 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 349101002462 active site 349101002463 Int/Topo IB signature motif; other site 349101002464 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349101002465 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 349101002466 excinuclease ABC subunit B; Provisional; Region: PRK05298 349101002467 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 349101002468 ATP binding site [chemical binding]; other site 349101002469 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 349101002470 nucleotide binding region [chemical binding]; other site 349101002471 ATP-binding site [chemical binding]; other site 349101002472 Ultra-violet resistance protein B; Region: UvrB; pfam12344 349101002473 UvrB/uvrC motif; Region: UVR; pfam02151 349101002474 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 349101002475 Entericidin EcnA/B family; Region: Entericidin; cl02322 349101002476 GTP-binding protein LepA; Provisional; Region: PRK05433 349101002477 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 349101002478 G1 box; other site 349101002479 putative GEF interaction site [polypeptide binding]; other site 349101002480 GTP/Mg2+ binding site [chemical binding]; other site 349101002481 Switch I region; other site 349101002482 G2 box; other site 349101002483 G3 box; other site 349101002484 Switch II region; other site 349101002485 G4 box; other site 349101002486 G5 box; other site 349101002487 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 349101002488 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 349101002489 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 349101002490 pyruvate carboxylase; Reviewed; Region: PRK12999 349101002491 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349101002492 ATP-grasp domain; Region: ATP-grasp_4; cl03087 349101002493 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 349101002494 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 349101002495 active site 349101002496 catalytic residues [active] 349101002497 metal binding site [ion binding]; metal-binding site 349101002498 homodimer binding site [polypeptide binding]; other site 349101002499 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 349101002500 carboxyltransferase (CT) interaction site; other site 349101002501 biotinylation site [posttranslational modification]; other site 349101002502 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 349101002503 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101002504 Family description; Region: UvrD_C_2; cl15862 349101002505 benzoate transporter; Region: benE; TIGR00843 349101002506 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 349101002507 Domain of unknown function DUF59; Region: DUF59; cl00941 349101002508 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 349101002509 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 349101002510 Walker A motif; other site 349101002511 MraZ protein; Region: MraZ; pfam02381 349101002512 MraZ protein; Region: MraZ; pfam02381 349101002513 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 349101002514 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 349101002515 S-adenosylmethionine binding site [chemical binding]; other site 349101002516 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 349101002517 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 349101002518 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 349101002519 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 349101002520 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 349101002521 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 349101002522 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349101002523 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349101002524 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 349101002525 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349101002526 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 349101002527 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 349101002528 Mg++ binding site [ion binding]; other site 349101002529 putative catalytic motif [active] 349101002530 putative substrate binding site [chemical binding]; other site 349101002531 BON domain; Region: BON; cl02771 349101002532 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 349101002533 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101002534 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349101002535 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349101002536 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 349101002537 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 349101002538 putative hydrophobic ligand binding site [chemical binding]; other site 349101002539 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 349101002540 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 349101002541 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 349101002542 active site 349101002543 homodimer interface [polypeptide binding]; other site 349101002544 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 349101002545 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 349101002546 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349101002547 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349101002548 Protein of unknown function (DUF2484); Region: DUF2484; pfam10658 349101002549 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 349101002550 FAD binding domain; Region: FAD_binding_4; pfam01565 349101002551 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 349101002552 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 349101002553 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 349101002554 ATP-grasp domain; Region: ATP-grasp_4; cl03087 349101002555 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 349101002556 Cell division protein FtsQ; Region: FtsQ; pfam03799 349101002557 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 349101002558 Cell division protein FtsA; Region: FtsA; cl11496 349101002559 Cell division protein FtsA; Region: FtsA; cl11496 349101002560 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 349101002561 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 349101002562 nucleotide binding site [chemical binding]; other site 349101002563 SulA interaction site; other site 349101002564 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 349101002565 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 349101002566 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 349101002567 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 349101002568 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 349101002569 Walker A/P-loop; other site 349101002570 ATP binding site [chemical binding]; other site 349101002571 Q-loop/lid; other site 349101002572 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 349101002573 ABC transporter signature motif; other site 349101002574 Walker B; other site 349101002575 D-loop; other site 349101002576 H-loop/switch region; other site 349101002577 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 349101002578 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 349101002579 FAD binding domain; Region: FAD_binding_4; pfam01565 349101002580 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 349101002581 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 349101002582 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 349101002583 B12 binding site [chemical binding]; other site 349101002584 cobalt ligand [ion binding]; other site 349101002585 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 349101002586 Radical SAM superfamily; Region: Radical_SAM; pfam04055 349101002587 FeS/SAM binding site; other site 349101002588 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 349101002589 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 349101002590 Domain of unknown function (DUF1476); Region: DUF1476; cl11571 349101002591 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 349101002592 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 349101002593 ATP binding site [chemical binding]; other site 349101002594 active site 349101002595 substrate binding site [chemical binding]; other site 349101002596 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 349101002597 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 349101002598 putative active site [active] 349101002599 catalytic triad [active] 349101002600 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 349101002601 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 349101002602 dimer interface [polypeptide binding]; other site 349101002603 phosphorylation site [posttranslational modification] 349101002604 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 349101002605 ATP binding site [chemical binding]; other site 349101002606 Mg2+ binding site [ion binding]; other site 349101002607 G-X-G motif; other site 349101002608 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 349101002609 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 349101002610 active site 349101002611 phosphorylation site [posttranslational modification] 349101002612 intermolecular recognition site; other site 349101002613 dimerization interface [polypeptide binding]; other site 349101002614 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 349101002615 Walker A motif; other site 349101002616 ATP binding site [chemical binding]; other site 349101002617 Walker B motif; other site 349101002618 arginine finger; other site 349101002619 Helix-turn-helix domains; Region: HTH; cl00088 349101002620 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 349101002621 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 349101002622 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 349101002623 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 349101002624 CPxP motif; other site 349101002625 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 349101002626 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 349101002627 Ribbon-helix-helix domain; Region: RHH_4; cl01775 349101002628 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 349101002629 fumarate hydratase; Reviewed; Region: fumC; PRK00485 349101002630 Class II fumarases; Region: Fumarase_classII; cd01362 349101002631 active site 349101002632 tetramer interface [polypeptide binding]; other site 349101002633 Stringent starvation protein B; Region: SspB; cl01120 349101002634 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 349101002635 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 349101002636 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101002637 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 349101002638 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 349101002639 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349101002640 catalytic residue [active] 349101002641 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 349101002642 DNA photolyase; Region: DNA_photolyase; pfam00875 349101002643 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 349101002644 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 349101002645 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 349101002646 S-adenosylmethionine binding site [chemical binding]; other site 349101002647 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl15777 349101002648 putative active site pocket [active] 349101002649 putative catalytic residue [active] 349101002650 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 349101002651 dimer interface [polypeptide binding]; other site 349101002652 ADP-ribose binding site [chemical binding]; other site 349101002653 active site 349101002654 nudix motif; other site 349101002655 metal binding site [ion binding]; metal-binding site 349101002656 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 349101002657 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 349101002658 dimer interface [polypeptide binding]; other site 349101002659 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101002660 catalytic residue [active] 349101002661 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 349101002662 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 349101002663 Mechanosensitive ion channel; Region: MS_channel; pfam00924 349101002664 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 349101002665 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 349101002666 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 349101002667 Ligand binding site; other site 349101002668 Putative Catalytic site; other site 349101002669 DXD motif; other site 349101002670 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 349101002671 ligand binding site; other site 349101002672 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 349101002673 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 349101002674 putative active site [active] 349101002675 putative metal binding site [ion binding]; other site 349101002676 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 349101002677 histidinol dehydrogenase; Region: hisD; TIGR00069 349101002678 NAD binding site [chemical binding]; other site 349101002679 dimerization interface [polypeptide binding]; other site 349101002680 product binding site; other site 349101002681 substrate binding site [chemical binding]; other site 349101002682 zinc binding site [ion binding]; other site 349101002683 catalytic residues [active] 349101002684 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 349101002685 dimer interface [polypeptide binding]; other site 349101002686 conserved gate region; other site 349101002687 putative PBP binding loops; other site 349101002688 ABC-ATPase subunit interface; other site 349101002689 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 349101002690 dimer interface [polypeptide binding]; other site 349101002691 conserved gate region; other site 349101002692 putative PBP binding loops; other site 349101002693 ABC-ATPase subunit interface; other site 349101002694 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 349101002695 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 349101002696 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101002697 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349101002698 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101002699 Walker A/P-loop; other site 349101002700 ATP binding site [chemical binding]; other site 349101002701 Q-loop/lid; other site 349101002702 ABC transporter signature motif; other site 349101002703 Walker B; other site 349101002704 D-loop; other site 349101002705 H-loop/switch region; other site 349101002706 TOBE domain; Region: TOBE_2; cl01440 349101002707 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 349101002708 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 349101002709 NADP binding site [chemical binding]; other site 349101002710 homodimer interface [polypeptide binding]; other site 349101002711 active site 349101002712 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 349101002713 active site 349101002714 Transglycosylase SLT domain; Region: SLT_2; pfam13406 349101002715 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 349101002716 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 349101002717 Helix-turn-helix domains; Region: HTH; cl00088 349101002718 AsnC family; Region: AsnC_trans_reg; pfam01037 349101002719 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 349101002720 Proline dehydrogenase; Region: Pro_dh; cl03282 349101002721 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 349101002722 Glutamate binding site [chemical binding]; other site 349101002723 NAD binding site [chemical binding]; other site 349101002724 catalytic residues [active] 349101002725 Rhomboid family; Region: Rhomboid; cl11446 349101002726 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 349101002727 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 349101002728 active site 349101002729 dimerization interface [polypeptide binding]; other site 349101002730 Phosphate transporter family; Region: PHO4; cl00396 349101002731 Phosphate transporter family; Region: PHO4; cl00396 349101002732 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349101002733 Helix-turn-helix domains; Region: HTH; cl00088 349101002734 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 349101002735 putative dimerization interface [polypeptide binding]; other site 349101002736 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 349101002737 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 349101002738 FAD binding site [chemical binding]; other site 349101002739 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 349101002740 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 349101002741 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 349101002742 Walker A/P-loop; other site 349101002743 ATP binding site [chemical binding]; other site 349101002744 Q-loop/lid; other site 349101002745 ABC transporter signature motif; other site 349101002746 Walker B; other site 349101002747 D-loop; other site 349101002748 H-loop/switch region; other site 349101002749 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 349101002750 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 349101002751 inhibitor-cofactor binding pocket; inhibition site 349101002752 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101002753 catalytic residue [active] 349101002754 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 349101002755 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 349101002756 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 349101002757 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 349101002758 active site 349101002759 interdomain interaction site; other site 349101002760 putative metal-binding site [ion binding]; other site 349101002761 nucleotide binding site [chemical binding]; other site 349101002762 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 349101002763 domain I; other site 349101002764 DNA binding groove [nucleotide binding] 349101002765 phosphate binding site [ion binding]; other site 349101002766 domain II; other site 349101002767 domain III; other site 349101002768 nucleotide binding site [chemical binding]; other site 349101002769 catalytic site [active] 349101002770 domain IV; other site 349101002771 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 349101002772 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 349101002773 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 349101002774 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 349101002775 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 349101002776 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101002777 Walker A/P-loop; other site 349101002778 ATP binding site [chemical binding]; other site 349101002779 Q-loop/lid; other site 349101002780 ABC transporter signature motif; other site 349101002781 Walker B; other site 349101002782 D-loop; other site 349101002783 H-loop/switch region; other site 349101002784 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 349101002785 dimer interface [polypeptide binding]; other site 349101002786 conserved gate region; other site 349101002787 putative PBP binding loops; other site 349101002788 ABC-ATPase subunit interface; other site 349101002789 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 349101002790 NMT1-like family; Region: NMT1_2; cl15260 349101002791 transcriptional regulator BetI; Validated; Region: PRK00767 349101002792 Helix-turn-helix domains; Region: HTH; cl00088 349101002793 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 349101002794 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349101002795 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 349101002796 NAD(P) binding site [chemical binding]; other site 349101002797 catalytic residues [active] 349101002798 choline dehydrogenase; Validated; Region: PRK02106 349101002799 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101002800 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 349101002801 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 349101002802 Catalytic site; other site 349101002803 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 349101002804 non-specific DNA binding site [nucleotide binding]; other site 349101002805 salt bridge; other site 349101002806 sequence-specific DNA binding site [nucleotide binding]; other site 349101002807 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 349101002808 Domain of unknown function (DUF955); Region: DUF955; cl01076 349101002809 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 349101002810 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 349101002811 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349101002812 putative substrate translocation pore; other site 349101002813 Protein of unknown function, DUF486; Region: DUF486; cl01236 349101002814 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 349101002815 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 349101002816 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 349101002817 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 349101002818 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349101002819 ATP-grasp domain; Region: ATP-grasp_4; cl03087 349101002820 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 349101002821 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 349101002822 carboxyltransferase (CT) interaction site; other site 349101002823 biotinylation site [posttranslational modification]; other site 349101002824 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 349101002825 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 349101002826 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 349101002827 active site 349101002828 substrate binding site [chemical binding]; other site 349101002829 coenzyme B12 binding site [chemical binding]; other site 349101002830 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 349101002831 B12 binding site [chemical binding]; other site 349101002832 cobalt ligand [ion binding]; other site 349101002833 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 349101002834 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 349101002835 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 349101002836 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 349101002837 lipoyl attachment site [posttranslational modification]; other site 349101002838 glycine dehydrogenase; Provisional; Region: PRK05367 349101002839 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 349101002840 tetramer interface [polypeptide binding]; other site 349101002841 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101002842 catalytic residue [active] 349101002843 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 349101002844 tetramer interface [polypeptide binding]; other site 349101002845 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101002846 catalytic residue [active] 349101002847 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 349101002848 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 349101002849 substrate binding site [chemical binding]; other site 349101002850 oxyanion hole (OAH) forming residues; other site 349101002851 trimer interface [polypeptide binding]; other site 349101002852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101002853 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 349101002854 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 349101002855 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 349101002856 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 349101002857 dimer interface [polypeptide binding]; other site 349101002858 active site 349101002859 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 349101002860 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 349101002861 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 349101002862 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349101002863 active site 349101002864 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 349101002865 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 349101002866 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 349101002867 DNA binding residues [nucleotide binding] 349101002868 putative dimer interface [polypeptide binding]; other site 349101002869 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 349101002870 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 349101002871 DNA binding residues [nucleotide binding] 349101002872 putative dimer interface [polypeptide binding]; other site 349101002873 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 349101002874 CoenzymeA binding site [chemical binding]; other site 349101002875 subunit interaction site [polypeptide binding]; other site 349101002876 PHB binding site; other site 349101002877 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 349101002878 CoenzymeA binding site [chemical binding]; other site 349101002879 subunit interaction site [polypeptide binding]; other site 349101002880 PHB binding site; other site 349101002881 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 349101002882 MatE; Region: MatE; cl10513 349101002883 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 349101002884 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 349101002885 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 349101002886 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 349101002887 TM-ABC transporter signature motif; other site 349101002888 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 349101002889 TM-ABC transporter signature motif; other site 349101002890 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 349101002891 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 349101002892 Walker A/P-loop; other site 349101002893 ATP binding site [chemical binding]; other site 349101002894 Q-loop/lid; other site 349101002895 ABC transporter signature motif; other site 349101002896 Walker B; other site 349101002897 D-loop; other site 349101002898 H-loop/switch region; other site 349101002899 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 349101002900 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 349101002901 ligand binding site [chemical binding]; other site 349101002902 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 349101002903 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349101002904 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 349101002905 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 349101002906 NifU-like domain; Region: NifU; cl00484 349101002907 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 349101002908 Ligand Binding Site [chemical binding]; other site 349101002909 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 349101002910 homodimer interface [polypeptide binding]; other site 349101002911 substrate-cofactor binding pocket; other site 349101002912 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101002913 catalytic residue [active] 349101002914 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_12; cd07255 349101002915 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349101002916 putative metal binding site [ion binding]; other site 349101002917 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 349101002918 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 349101002919 putative acyl-acceptor binding pocket; other site 349101002920 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 349101002921 FliG C-terminal domain; Region: FliG_C; pfam01706 349101002922 adenylosuccinate lyase; Provisional; Region: PRK07492 349101002923 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 349101002924 tetramer interface [polypeptide binding]; other site 349101002925 active site 349101002926 Domain of unknown function (DUF333); Region: DUF333; pfam03891 349101002927 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 349101002928 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349101002929 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349101002930 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349101002931 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 349101002932 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 349101002933 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 349101002934 active site 349101002935 catalytic site [active] 349101002936 glucose-1-phosphate adenylyltransferase; Region: glgC; TIGR02091 349101002937 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 349101002938 active site 349101002939 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 349101002940 sulfate 1 binding site; other site 349101002941 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 349101002942 putative active site [active] 349101002943 heme pocket [chemical binding]; other site 349101002944 CheB methylesterase; Region: CheB_methylest; pfam01339 349101002945 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 349101002946 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 349101002947 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; cl16911 349101002948 PAS domain; Region: PAS_10; pfam13596 349101002949 PAS fold; Region: PAS_4; pfam08448 349101002950 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 349101002951 hypothetical protein; Provisional; Region: PRK13559 349101002952 Histidine kinase; Region: HisKA_2; cl06527 349101002953 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; cl09944 349101002954 active site 349101002955 phosphorylation site [posttranslational modification] 349101002956 intermolecular recognition site; other site 349101002957 dimerization interface [polypeptide binding]; other site 349101002958 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 349101002959 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 349101002960 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 349101002961 Fe-S cluster binding site [ion binding]; other site 349101002962 active site 349101002963 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 349101002964 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 349101002965 FeS/SAM binding site; other site 349101002966 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 349101002967 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349101002968 Helix-turn-helix domains; Region: HTH; cl00088 349101002969 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 349101002970 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349101002971 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349101002972 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 349101002973 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349101002974 putative substrate translocation pore; other site 349101002975 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 349101002976 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 349101002977 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101002978 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 349101002979 metal binding site [ion binding]; metal-binding site 349101002980 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 349101002981 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 349101002982 substrate binding site [chemical binding]; other site 349101002983 glutamase interaction surface [polypeptide binding]; other site 349101002984 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 349101002985 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 349101002986 catalytic residues [active] 349101002987 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 349101002988 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 349101002989 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 349101002990 putative active site [active] 349101002991 oxyanion strand; other site 349101002992 catalytic triad [active] 349101002993 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 349101002994 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 349101002995 putative active site pocket [active] 349101002996 4-fold oligomerization interface [polypeptide binding]; other site 349101002997 metal binding residues [ion binding]; metal-binding site 349101002998 3-fold/trimer interface [polypeptide binding]; other site 349101002999 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 349101003000 elongation factor G; Reviewed; Region: PRK12740 349101003001 G1 box; other site 349101003002 putative GEF interaction site [polypeptide binding]; other site 349101003003 GTP/Mg2+ binding site [chemical binding]; other site 349101003004 Switch I region; other site 349101003005 G2 box; other site 349101003006 G3 box; other site 349101003007 Switch II region; other site 349101003008 G4 box; other site 349101003009 G5 box; other site 349101003010 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 349101003011 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 349101003012 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 349101003013 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 349101003014 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349101003015 putative substrate translocation pore; other site 349101003016 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349101003017 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 349101003018 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 349101003019 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 349101003020 hypothetical protein; Provisional; Region: PRK06815 349101003021 tetramer interface [polypeptide binding]; other site 349101003022 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101003023 catalytic residue [active] 349101003024 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349101003025 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 349101003026 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 349101003027 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 349101003028 Walker A/P-loop; other site 349101003029 ATP binding site [chemical binding]; other site 349101003030 Q-loop/lid; other site 349101003031 ABC transporter signature motif; other site 349101003032 Walker B; other site 349101003033 D-loop; other site 349101003034 H-loop/switch region; other site 349101003035 AMP-binding domain protein; Validated; Region: PRK07529 349101003036 AMP-binding enzyme; Region: AMP-binding; cl15778 349101003037 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349101003038 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 349101003039 putative active site [active] 349101003040 dimerization interface [polypeptide binding]; other site 349101003041 putative tRNAtyr binding site [nucleotide binding]; other site 349101003042 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 349101003043 putative substrate binding site [chemical binding]; other site 349101003044 putative ATP binding site [chemical binding]; other site 349101003045 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 349101003046 active site 349101003047 ATP binding site [chemical binding]; other site 349101003048 substrate binding site [chemical binding]; other site 349101003049 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 349101003050 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 349101003051 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 349101003052 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 349101003053 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 349101003054 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 349101003055 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 349101003056 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 349101003057 RNA binding surface [nucleotide binding]; other site 349101003058 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 349101003059 active site 349101003060 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 349101003061 nucleoside/Zn binding site; other site 349101003062 dimer interface [polypeptide binding]; other site 349101003063 catalytic motif [active] 349101003064 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349101003065 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 349101003066 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 349101003067 Amidase; Region: Amidase; cl11426 349101003068 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 349101003069 amidase catalytic site [active] 349101003070 Zn binding residues [ion binding]; other site 349101003071 substrate binding site [chemical binding]; other site 349101003072 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 349101003073 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 349101003074 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 349101003075 Walker A/P-loop; other site 349101003076 ATP binding site [chemical binding]; other site 349101003077 Q-loop/lid; other site 349101003078 ABC transporter signature motif; other site 349101003079 Walker B; other site 349101003080 D-loop; other site 349101003081 H-loop/switch region; other site 349101003082 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 349101003083 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 349101003084 putative ligand binding site [chemical binding]; other site 349101003085 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 349101003086 TM-ABC transporter signature motif; other site 349101003087 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 349101003088 TM-ABC transporter signature motif; other site 349101003089 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 349101003090 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 349101003091 Walker A/P-loop; other site 349101003092 ATP binding site [chemical binding]; other site 349101003093 Q-loop/lid; other site 349101003094 ABC transporter signature motif; other site 349101003095 Walker B; other site 349101003096 D-loop; other site 349101003097 H-loop/switch region; other site 349101003098 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 349101003099 AMP-binding enzyme; Region: AMP-binding; cl15778 349101003100 PAS fold; Region: PAS_7; pfam12860 349101003101 sensory histidine kinase AtoS; Provisional; Region: PRK11360 349101003102 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 349101003103 ATP binding site [chemical binding]; other site 349101003104 Mg2+ binding site [ion binding]; other site 349101003105 G-X-G motif; other site 349101003106 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 349101003107 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 349101003108 phosphorylation site [posttranslational modification] 349101003109 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349101003110 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 349101003111 active site 349101003112 phosphorylation site [posttranslational modification] 349101003113 intermolecular recognition site; other site 349101003114 dimerization interface [polypeptide binding]; other site 349101003115 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 349101003116 DNA binding site [nucleotide binding] 349101003117 Chromate transporter; Region: Chromate_transp; pfam02417 349101003118 Chromate transporter; Region: Chromate_transp; pfam02417 349101003119 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 349101003120 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 349101003121 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 349101003122 RNA binding surface [nucleotide binding]; other site 349101003123 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 349101003124 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 349101003125 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101003126 homodimer interface [polypeptide binding]; other site 349101003127 catalytic residue [active] 349101003128 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 349101003129 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101003130 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 349101003131 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 349101003132 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 349101003133 putative active site pocket [active] 349101003134 dimerization interface [polypeptide binding]; other site 349101003135 putative catalytic residue [active] 349101003136 hypothetical protein; Validated; Region: PRK09039 349101003137 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349101003138 ligand binding site [chemical binding]; other site 349101003139 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349101003140 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 349101003141 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 349101003142 Walker A motif; other site 349101003143 ATP binding site [chemical binding]; other site 349101003144 Walker B motif; other site 349101003145 arginine finger; other site 349101003146 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 349101003147 Walker A motif; other site 349101003148 ATP binding site [chemical binding]; other site 349101003149 Walker B motif; other site 349101003150 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 349101003151 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349101003152 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 349101003153 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; cl16911 349101003154 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 349101003155 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 349101003156 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 349101003157 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 349101003158 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 349101003159 beta subunit interaction interface [polypeptide binding]; other site 349101003160 Walker A motif; other site 349101003161 ATP binding site [chemical binding]; other site 349101003162 Walker B motif; other site 349101003163 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 349101003164 ATP synthase; Region: ATP-synt; cl00365 349101003165 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 349101003166 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 349101003167 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 349101003168 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 349101003169 alpha subunit interaction interface [polypeptide binding]; other site 349101003170 Walker A motif; other site 349101003171 ATP binding site [chemical binding]; other site 349101003172 Walker B motif; other site 349101003173 inhibitor binding site; inhibition site 349101003174 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 349101003175 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13443 349101003176 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 349101003177 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 349101003178 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 349101003179 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349101003180 active site 349101003181 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 349101003182 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 349101003183 tetramer interface [polypeptide binding]; other site 349101003184 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101003185 catalytic residue [active] 349101003186 Flagellin N-methylase; Region: FliB; cl00497 349101003187 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 349101003188 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 349101003189 active site 349101003190 Riboflavin kinase; Region: Flavokinase; cl03312 349101003191 (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 349101003192 dimer interaction site [polypeptide binding]; other site 349101003193 substrate-binding tunnel; other site 349101003194 active site 349101003195 catalytic site [active] 349101003196 substrate binding site [chemical binding]; other site 349101003197 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 349101003198 Haloacid Dehalogenase Superfamily Class (subfamily) IIA; Region: HAD-SF-IIA; TIGR01460 349101003199 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 349101003200 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 349101003201 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 349101003202 DHHA2 domain; Region: DHHA2; pfam02833 349101003203 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 349101003204 TraB family; Region: TraB; cl12050 349101003205 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 349101003206 oligomerisation interface [polypeptide binding]; other site 349101003207 mobile loop; other site 349101003208 roof hairpin; other site 349101003209 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 349101003210 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 349101003211 ring oligomerisation interface [polypeptide binding]; other site 349101003212 ATP/Mg binding site [chemical binding]; other site 349101003213 stacking interactions; other site 349101003214 hinge regions; other site 349101003215 Bacterial SH3 domain; Region: SH3_3; cl02551 349101003216 Bacterial SH3 domain; Region: SH3_3; cl02551 349101003217 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 349101003218 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101003219 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 349101003220 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349101003221 active site 349101003222 catalytic tetrad [active] 349101003223 FAD dependent oxidoreductase; Region: DAO; pfam01266 349101003224 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 349101003225 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 349101003226 putative active site [active] 349101003227 metal binding site [ion binding]; metal-binding site 349101003228 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349101003229 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 349101003230 NAD(P) binding site [chemical binding]; other site 349101003231 catalytic residues [active] 349101003232 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 349101003233 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 349101003234 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 349101003235 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349101003236 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349101003237 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 349101003238 N-formylglutamate amidohydrolase; Region: FGase; cl01522 349101003239 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 349101003240 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 349101003241 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 349101003242 putative active site [active] 349101003243 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 349101003244 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 349101003245 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 349101003246 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 349101003247 rod shape-determining protein MreC; Region: MreC; pfam04085 349101003248 rod shape-determining protein MreB; Provisional; Region: PRK13927 349101003249 Cell division protein FtsA; Region: FtsA; cl11496 349101003250 2-isopropylmalate synthase; Validated; Region: PRK00915 349101003251 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 349101003252 active site 349101003253 catalytic residues [active] 349101003254 metal binding site [ion binding]; metal-binding site 349101003255 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 349101003256 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 349101003257 phosphatidylinositol phosphate kinase; Provisional; Region: PLN03185 349101003258 phosphatidylinositol phosphate kinase; Provisional; Region: PLN03185 349101003259 phosphatidylinositol phosphate kinase; Provisional; Region: PLN03185 349101003260 MORN repeat; Region: MORN; cl14787 349101003261 MORN repeat; Region: MORN; cl14787 349101003262 NAD synthetase; Provisional; Region: PRK13981 349101003263 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 349101003264 multimer interface [polypeptide binding]; other site 349101003265 active site 349101003266 catalytic triad [active] 349101003267 protein interface 1 [polypeptide binding]; other site 349101003268 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 349101003269 homodimer interface [polypeptide binding]; other site 349101003270 NAD binding pocket [chemical binding]; other site 349101003271 ATP binding pocket [chemical binding]; other site 349101003272 Mg binding site [ion binding]; other site 349101003273 active-site loop [active] 349101003274 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 349101003275 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 349101003276 putative substrate binding site [chemical binding]; other site 349101003277 putative ATP binding site [chemical binding]; other site 349101003278 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 349101003279 Peptidase family M48; Region: Peptidase_M48; cl12018 349101003280 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 349101003281 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 349101003282 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 349101003283 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 349101003284 FeS/SAM binding site; other site 349101003285 hypothetical protein; Provisional; Region: PRK07550 349101003286 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 349101003287 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101003288 homodimer interface [polypeptide binding]; other site 349101003289 catalytic residue [active] 349101003290 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349101003291 active site 349101003292 LysE type translocator; Region: LysE; cl00565 349101003293 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 349101003294 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 349101003295 NAD binding site [chemical binding]; other site 349101003296 homotetramer interface [polypeptide binding]; other site 349101003297 homodimer interface [polypeptide binding]; other site 349101003298 substrate binding site [chemical binding]; other site 349101003299 active site 349101003300 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 349101003301 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 349101003302 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 349101003303 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 349101003304 DNA-binding site [nucleotide binding]; DNA binding site 349101003305 RNA-binding motif; other site 349101003306 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 349101003307 DNA-binding site [nucleotide binding]; DNA binding site 349101003308 RNA-binding motif; other site 349101003309 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 349101003310 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 349101003311 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101003312 DNA-binding site [nucleotide binding]; DNA binding site 349101003313 UTRA domain; Region: UTRA; cl01230 349101003314 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101003315 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 349101003316 NAD(P) binding site [chemical binding]; other site 349101003317 active site 349101003318 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 349101003319 intersubunit interface [polypeptide binding]; other site 349101003320 active site 349101003321 Zn2+ binding site [ion binding]; other site 349101003322 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 349101003323 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 349101003324 putative ligand binding site [chemical binding]; other site 349101003325 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 349101003326 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 349101003327 Walker A/P-loop; other site 349101003328 ATP binding site [chemical binding]; other site 349101003329 Q-loop/lid; other site 349101003330 ABC transporter signature motif; other site 349101003331 Walker B; other site 349101003332 D-loop; other site 349101003333 H-loop/switch region; other site 349101003334 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 349101003335 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 349101003336 TM-ABC transporter signature motif; other site 349101003337 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 349101003338 TM-ABC transporter signature motif; other site 349101003339 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 349101003340 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 349101003341 substrate binding site [chemical binding]; other site 349101003342 ATP binding site [chemical binding]; other site 349101003343 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 349101003344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101003345 NAD(P) binding site [chemical binding]; other site 349101003346 active site 349101003347 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 349101003348 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349101003349 NAD binding site [chemical binding]; other site 349101003350 catalytic residues [active] 349101003351 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 349101003352 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 349101003353 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 349101003354 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 349101003355 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349101003356 catalytic residue [active] 349101003357 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 349101003358 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 349101003359 NAD(P) binding site [chemical binding]; other site 349101003360 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 349101003361 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 349101003362 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 349101003363 heme binding pocket [chemical binding]; other site 349101003364 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 349101003365 domain interactions; other site 349101003366 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 349101003367 active site 349101003368 DNA binding site [nucleotide binding] 349101003369 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 349101003370 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 349101003371 Phosphate-starvation-inducible E; Region: PsiE; cl01264 349101003372 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 349101003373 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 349101003374 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 349101003375 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 349101003376 nudix motif; other site 349101003377 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 349101003378 catalytic residues [active] 349101003379 dimer interface [polypeptide binding]; other site 349101003380 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 349101003381 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 349101003382 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 349101003383 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 349101003384 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 349101003385 Phospholipid methyltransferase; Region: PEMT; cl00763 349101003386 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 349101003387 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 349101003388 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 349101003389 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349101003390 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 349101003391 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101003392 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 349101003393 dimer interface [polypeptide binding]; other site 349101003394 conserved gate region; other site 349101003395 putative PBP binding loops; other site 349101003396 ABC-ATPase subunit interface; other site 349101003397 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 349101003398 dimer interface [polypeptide binding]; other site 349101003399 conserved gate region; other site 349101003400 putative PBP binding loops; other site 349101003401 ABC-ATPase subunit interface; other site 349101003402 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349101003403 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101003404 Walker A/P-loop; other site 349101003405 ATP binding site [chemical binding]; other site 349101003406 Q-loop/lid; other site 349101003407 ABC transporter signature motif; other site 349101003408 Walker B; other site 349101003409 D-loop; other site 349101003410 H-loop/switch region; other site 349101003411 TOBE domain; Region: TOBE_2; cl01440 349101003412 amidase; Provisional; Region: PRK07869 349101003413 Amidase; Region: Amidase; cl11426 349101003414 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 349101003415 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 349101003416 N-terminal plug; other site 349101003417 ligand-binding site [chemical binding]; other site 349101003418 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 349101003419 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 349101003420 intersubunit interface [polypeptide binding]; other site 349101003421 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 349101003422 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 349101003423 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 349101003424 Adenosylcobinamide amidohydrolase; Region: CbiZ; cl00808 349101003425 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 349101003426 dimer interface [polypeptide binding]; other site 349101003427 phosphorylation site [posttranslational modification] 349101003428 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 349101003429 ATP binding site [chemical binding]; other site 349101003430 Mg2+ binding site [ion binding]; other site 349101003431 G-X-G motif; other site 349101003432 Response regulator receiver domain; Region: Response_reg; pfam00072 349101003433 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 349101003434 active site 349101003435 phosphorylation site [posttranslational modification] 349101003436 intermolecular recognition site; other site 349101003437 dimerization interface [polypeptide binding]; other site 349101003438 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 349101003439 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 349101003440 RNA binding surface [nucleotide binding]; other site 349101003441 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 349101003442 active site 349101003443 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 349101003444 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 349101003445 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349101003446 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 349101003447 DNA binding residues [nucleotide binding] 349101003448 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; cl16911 349101003449 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 349101003450 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 349101003451 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 349101003452 active site 349101003453 Zn binding site [ion binding]; other site 349101003454 ATP-dependent DNA ligase; Validated; Region: PRK09247 349101003455 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 349101003456 active site 349101003457 DNA binding site [nucleotide binding] 349101003458 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 349101003459 DNA binding site [nucleotide binding] 349101003460 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 349101003461 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349101003462 Uncharacterized conserved protein [Function unknown]; Region: COG2308 349101003463 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 349101003464 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 349101003465 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 349101003466 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 349101003467 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 349101003468 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 349101003469 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 349101003470 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 349101003471 SCP-2 sterol transfer family; Region: SCP2; cl01225 349101003472 TPR repeat; Region: TPR_11; pfam13414 349101003473 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 349101003474 binding surface 349101003475 TPR motif; other site 349101003476 TPR repeat; Region: TPR_11; pfam13414 349101003477 Superfamily II helicase [General function prediction only]; Region: COG1204 349101003478 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 349101003479 nucleotide binding region [chemical binding]; other site 349101003480 ATP-binding site [chemical binding]; other site 349101003481 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 349101003482 RNA binding surface [nucleotide binding]; other site 349101003483 Ferredoxin [Energy production and conversion]; Region: COG1146 349101003484 4Fe-4S binding domain; Region: Fer4; cl02805 349101003485 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 349101003486 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 349101003487 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 349101003488 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 349101003489 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 349101003490 putative dimer interface [polypeptide binding]; other site 349101003491 active site pocket [active] 349101003492 putative cataytic base [active] 349101003493 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 349101003494 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 349101003495 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101003496 Protein of unknown function (DUF541); Region: SIMPL; cl01077 349101003497 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 349101003498 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 349101003499 homodimer interface [polypeptide binding]; other site 349101003500 substrate-cofactor binding pocket; other site 349101003501 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101003502 catalytic residue [active] 349101003503 Response regulator receiver domain; Region: Response_reg; pfam00072 349101003504 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 349101003505 active site 349101003506 phosphorylation site [posttranslational modification] 349101003507 intermolecular recognition site; other site 349101003508 dimerization interface [polypeptide binding]; other site 349101003509 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 349101003510 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 349101003511 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; cl16911 349101003512 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 349101003513 putative CheA interaction surface; other site 349101003514 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 349101003515 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 349101003516 putative binding surface; other site 349101003517 active site 349101003518 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 349101003519 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 349101003520 ATP binding site [chemical binding]; other site 349101003521 Mg2+ binding site [ion binding]; other site 349101003522 G-X-G motif; other site 349101003523 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 349101003524 Response regulator receiver domain; Region: Response_reg; pfam00072 349101003525 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 349101003526 active site 349101003527 phosphorylation site [posttranslational modification] 349101003528 intermolecular recognition site; other site 349101003529 dimerization interface [polypeptide binding]; other site 349101003530 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 349101003531 CheD chemotactic sensory transduction; Region: CheD; cl00810 349101003532 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 349101003533 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 349101003534 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 349101003535 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349101003536 dimer interface [polypeptide binding]; other site 349101003537 putative CheW interface [polypeptide binding]; other site 349101003538 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 349101003539 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 349101003540 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349101003541 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349101003542 dimer interface [polypeptide binding]; other site 349101003543 putative CheW interface [polypeptide binding]; other site 349101003544 Response regulator receiver domain; Region: Response_reg; pfam00072 349101003545 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 349101003546 active site 349101003547 phosphorylation site [posttranslational modification] 349101003548 intermolecular recognition site; other site 349101003549 dimerization interface [polypeptide binding]; other site 349101003550 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 349101003551 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 349101003552 active site 349101003553 homodimer interface [polypeptide binding]; other site 349101003554 catalytic site [active] 349101003555 acceptor binding site [chemical binding]; other site 349101003556 glycogen branching enzyme; Provisional; Region: PRK12313 349101003557 trehalose synthase; Region: treS_nterm; TIGR02456 349101003558 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 349101003559 active site 349101003560 catalytic site [active] 349101003561 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 349101003562 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 349101003563 glycogen branching enzyme; Provisional; Region: PRK05402 349101003564 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 349101003565 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 349101003566 active site 349101003567 catalytic site [active] 349101003568 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 349101003569 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 349101003570 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 349101003571 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 349101003572 active site 349101003573 catalytic site [active] 349101003574 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 349101003575 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 349101003576 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 349101003577 catalytic site [active] 349101003578 active site 349101003579 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 349101003580 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 349101003581 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 349101003582 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 349101003583 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 349101003584 active site 349101003585 catalytic site [active] 349101003586 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 349101003587 classical (c) SDRs; Region: SDR_c; cd05233 349101003588 NAD(P) binding site [chemical binding]; other site 349101003589 active site 349101003590 amidophosphoribosyltransferase; Provisional; Region: PRK09123 349101003591 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 349101003592 active site 349101003593 tetramer interface [polypeptide binding]; other site 349101003594 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349101003595 active site 349101003596 DNA repair protein RadA; Provisional; Region: PRK11823 349101003597 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 349101003598 Walker A motif/ATP binding site; other site 349101003599 ATP binding site [chemical binding]; other site 349101003600 Walker B motif; other site 349101003601 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 349101003602 Paraquat-inducible protein A; Region: PqiA; pfam04403 349101003603 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 349101003604 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 349101003605 Walker A/P-loop; other site 349101003606 ATP binding site [chemical binding]; other site 349101003607 Q-loop/lid; other site 349101003608 ABC transporter signature motif; other site 349101003609 Walker B; other site 349101003610 D-loop; other site 349101003611 H-loop/switch region; other site 349101003612 Permease; Region: Permease; cl00510 349101003613 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 349101003614 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 349101003615 active site 349101003616 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349101003617 dimer interface [polypeptide binding]; other site 349101003618 substrate binding site [chemical binding]; other site 349101003619 catalytic residues [active] 349101003620 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 349101003621 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101003622 NAD(P) binding site [chemical binding]; other site 349101003623 active site 349101003624 Phosphopantetheine attachment site; Region: PP-binding; cl09936 349101003625 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 349101003626 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 349101003627 dimer interface [polypeptide binding]; other site 349101003628 active site 349101003629 YceG-like family; Region: YceG; pfam02618 349101003630 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 349101003631 dimerization interface [polypeptide binding]; other site 349101003632 Uncharacterized conserved protein [Function unknown]; Region: COG5323 349101003633 Phage-related protein [Function unknown]; Region: COG4695; cl01923 349101003634 Phage portal protein; Region: Phage_portal; pfam04860 349101003635 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 349101003636 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 349101003637 Phage capsid family; Region: Phage_capsid; pfam05065 349101003638 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 349101003639 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 349101003640 oligomerization interface [polypeptide binding]; other site 349101003641 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 349101003642 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 349101003643 Phage major tail protein 2; Region: Phage_tail_2; cl11463 349101003644 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 349101003645 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; cl09774 349101003646 Phage-related minor tail protein [Function unknown]; Region: COG5281 349101003647 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 349101003648 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 349101003649 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 349101003650 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 349101003651 NlpC/P60 family; Region: NLPC_P60; cl11438 349101003652 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 349101003653 Putative phage tail protein; Region: Phage-tail_3; pfam13550 349101003654 serine acetyltransferase; Provisional; Region: cysE; PRK11132 349101003655 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 349101003656 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 349101003657 trimer interface [polypeptide binding]; other site 349101003658 active site 349101003659 substrate binding site [chemical binding]; other site 349101003660 CoA binding site [chemical binding]; other site 349101003661 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 349101003662 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 349101003663 E3 interaction surface; other site 349101003664 lipoyl attachment site [posttranslational modification]; other site 349101003665 e3 binding domain; Region: E3_binding; pfam02817 349101003666 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 349101003667 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 349101003668 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 349101003669 E3 interaction surface; other site 349101003670 lipoyl attachment site [posttranslational modification]; other site 349101003671 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 349101003672 alpha subunit interface [polypeptide binding]; other site 349101003673 TPP binding site [chemical binding]; other site 349101003674 heterodimer interface [polypeptide binding]; other site 349101003675 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349101003676 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 349101003677 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 349101003678 tetramer interface [polypeptide binding]; other site 349101003679 TPP-binding site [chemical binding]; other site 349101003680 heterodimer interface [polypeptide binding]; other site 349101003681 phosphorylation loop region [posttranslational modification] 349101003682 Septum formation initiator; Region: DivIC; cl11433 349101003683 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 349101003684 putative active site; other site 349101003685 catalytic residue [active] 349101003686 Phosphoglycerate kinase; Region: PGK; pfam00162 349101003687 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 349101003688 substrate binding site [chemical binding]; other site 349101003689 hinge regions; other site 349101003690 ADP binding site [chemical binding]; other site 349101003691 catalytic site [active] 349101003692 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 349101003693 active site 349101003694 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 349101003695 active site 349101003696 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 349101003697 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 349101003698 active site 349101003699 HIGH motif; other site 349101003700 dimer interface [polypeptide binding]; other site 349101003701 KMSKS motif; other site 349101003702 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 349101003703 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 349101003704 enolase; Provisional; Region: eno; PRK00077 349101003705 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 349101003706 dimer interface [polypeptide binding]; other site 349101003707 metal binding site [ion binding]; metal-binding site 349101003708 substrate binding pocket [chemical binding]; other site 349101003709 Helix-turn-helix domains; Region: HTH; cl00088 349101003710 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 349101003711 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 349101003712 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 349101003713 Transcriptional regulator; Region: Transcrip_reg; cl00361 349101003714 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 349101003715 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 349101003716 TSCPD domain; Region: TSCPD; cl14834 349101003717 molybdenum transport protein ModD; Provisional; Region: PRK06096 349101003718 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 349101003719 dimerization interface [polypeptide binding]; other site 349101003720 active site 349101003721 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 349101003722 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 349101003723 glutaminase active site [active] 349101003724 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 349101003725 dimer interface [polypeptide binding]; other site 349101003726 active site 349101003727 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 349101003728 dimer interface [polypeptide binding]; other site 349101003729 active site 349101003730 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 349101003731 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 349101003732 Substrate binding site; other site 349101003733 Mg++ binding site; other site 349101003734 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 349101003735 active site 349101003736 substrate binding site [chemical binding]; other site 349101003737 CoA binding site [chemical binding]; other site 349101003738 phosphoglycolate phosphatase; Provisional; Region: PRK13222 349101003739 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 349101003740 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 349101003741 motif II; other site 349101003742 CreA protein; Region: CreA; pfam05981 349101003743 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349101003744 isovaleryl-CoA dehydrogenase; Region: PLN02519 349101003745 active site 349101003746 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; cl01155 349101003747 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 349101003748 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 349101003749 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 349101003750 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349101003751 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 349101003752 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 349101003753 carboxyltransferase (CT) interaction site; other site 349101003754 biotinylation site [posttranslational modification]; other site 349101003755 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 349101003756 active site 349101003757 catalytic residues [active] 349101003758 metal binding site [ion binding]; metal-binding site 349101003759 enoyl-CoA hydratase; Provisional; Region: PRK07468 349101003760 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 349101003761 substrate binding site [chemical binding]; other site 349101003762 oxyanion hole (OAH) forming residues; other site 349101003763 trimer interface [polypeptide binding]; other site 349101003764 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 349101003765 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 349101003766 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 349101003767 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 349101003768 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 349101003769 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 349101003770 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 349101003771 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 349101003772 putative dimer interface [polypeptide binding]; other site 349101003773 [2Fe-2S] cluster binding site [ion binding]; other site 349101003774 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 349101003775 SLBB domain; Region: SLBB; pfam10531 349101003776 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 349101003777 NADH dehydrogenase subunit G; Validated; Region: PRK09130 349101003778 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 349101003779 catalytic loop [active] 349101003780 iron binding site [ion binding]; other site 349101003781 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 349101003782 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 349101003783 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 349101003784 NADH dehydrogenase; Region: NADHdh; cl00469 349101003785 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 349101003786 4Fe-4S binding domain; Region: Fer4; cl02805 349101003787 4Fe-4S binding domain; Region: Fer4; cl02805 349101003788 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 349101003789 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 349101003790 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 349101003791 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 349101003792 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 349101003793 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 349101003794 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 349101003795 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 349101003796 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 349101003797 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 349101003798 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 349101003799 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 349101003800 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 349101003801 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 349101003802 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 349101003803 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 349101003804 Type III pantothenate kinase; Region: Pan_kinase; cl09130 349101003805 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 349101003806 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349101003807 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 349101003808 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 349101003809 DEAD-like helicases superfamily; Region: DEXDc; smart00487 349101003810 ATP binding site [chemical binding]; other site 349101003811 Mg++ binding site [ion binding]; other site 349101003812 motif III; other site 349101003813 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 349101003814 nucleotide binding region [chemical binding]; other site 349101003815 ATP-binding site [chemical binding]; other site 349101003816 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 349101003817 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 349101003818 G1 box; other site 349101003819 putative GEF interaction site [polypeptide binding]; other site 349101003820 GTP/Mg2+ binding site [chemical binding]; other site 349101003821 Switch I region; other site 349101003822 G2 box; other site 349101003823 G3 box; other site 349101003824 Switch II region; other site 349101003825 G4 box; other site 349101003826 G5 box; other site 349101003827 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 349101003828 short chain dehydrogenase; Provisional; Region: PRK06523 349101003829 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 349101003830 putative NAD(P) binding site [chemical binding]; other site 349101003831 putative active site [active] 349101003832 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349101003833 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 349101003834 Walker A/P-loop; other site 349101003835 ATP binding site [chemical binding]; other site 349101003836 Q-loop/lid; other site 349101003837 ABC transporter signature motif; other site 349101003838 Walker B; other site 349101003839 D-loop; other site 349101003840 H-loop/switch region; other site 349101003841 TOBE domain; Region: TOBE_2; cl01440 349101003842 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 349101003843 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 349101003844 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 349101003845 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 349101003846 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 349101003847 Walker A motif; other site 349101003848 ATP binding site [chemical binding]; other site 349101003849 Walker B motif; other site 349101003850 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349101003851 Peptidase family M23; Region: Peptidase_M23; pfam01551 349101003852 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 349101003853 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 349101003854 S-adenosylmethionine binding site [chemical binding]; other site 349101003855 Survival protein SurE; Region: SurE; cl00448 349101003856 Bacterial sugar transferase; Region: Bac_transf; cl00939 349101003857 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 349101003858 SLBB domain; Region: SLBB; pfam10531 349101003859 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 349101003860 O-Antigen ligase; Region: Wzy_C; cl04850 349101003861 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 349101003862 active site 349101003863 catalytic residues [active] 349101003864 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 349101003865 active site 349101003866 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 349101003867 active site 349101003868 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 349101003869 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 349101003870 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 349101003871 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 349101003872 active site 349101003873 dimer interface [polypeptide binding]; other site 349101003874 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 349101003875 Ligand Binding Site [chemical binding]; other site 349101003876 Molecular Tunnel; other site 349101003877 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 349101003878 Hpr binding site; other site 349101003879 active site 349101003880 homohexamer subunit interaction site [polypeptide binding]; other site 349101003881 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349101003882 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101003883 Walker A/P-loop; other site 349101003884 ATP binding site [chemical binding]; other site 349101003885 Q-loop/lid; other site 349101003886 ABC transporter signature motif; other site 349101003887 Walker B; other site 349101003888 D-loop; other site 349101003889 H-loop/switch region; other site 349101003890 Chain length determinant protein; Region: Wzz; cl15801 349101003891 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 349101003892 Chain length determinant protein; Region: Wzz; cl15801 349101003893 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 349101003894 P-loop; other site 349101003895 Magnesium ion binding site [ion binding]; other site 349101003896 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 349101003897 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 349101003898 active site 349101003899 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 349101003900 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 349101003901 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 349101003902 Ligand binding site; other site 349101003903 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 349101003904 active site 349101003905 tetramer interface; other site 349101003906 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349101003907 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101003908 NAD(P) binding site [chemical binding]; other site 349101003909 active site 349101003910 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 349101003911 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 349101003912 active site 349101003913 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101003914 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349101003915 NAD(P) binding site [chemical binding]; other site 349101003916 active site 349101003917 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 349101003918 intracellular protease, PfpI family; Region: PfpI; TIGR01382 349101003919 proposed catalytic triad [active] 349101003920 conserved cys residue [active] 349101003921 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 349101003922 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 349101003923 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 349101003924 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349101003925 ligand binding site [chemical binding]; other site 349101003926 flexible hinge region; other site 349101003927 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 349101003928 putative switch regulator; other site 349101003929 non-specific DNA interactions [nucleotide binding]; other site 349101003930 DNA binding site [nucleotide binding] 349101003931 sequence specific DNA binding site [nucleotide binding]; other site 349101003932 putative cAMP binding site [chemical binding]; other site 349101003933 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349101003934 Helix-turn-helix domains; Region: HTH; cl00088 349101003935 Protein of unknown function (DUF2380); Region: DUF3280; pfam11684 349101003936 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 349101003937 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 349101003938 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 349101003939 substrate binding site [chemical binding]; other site 349101003940 catalytic Zn binding site [ion binding]; other site 349101003941 NAD binding site [chemical binding]; other site 349101003942 structural Zn binding site [ion binding]; other site 349101003943 dimer interface [polypeptide binding]; other site 349101003944 Cytochrome c; Region: Cytochrom_C; cl11414 349101003945 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 349101003946 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 349101003947 Trp docking motif [polypeptide binding]; other site 349101003948 dimer interface [polypeptide binding]; other site 349101003949 active site 349101003950 small subunit binding site [polypeptide binding]; other site 349101003951 Cytochrome c; Region: Cytochrom_C; cl11414 349101003952 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 349101003953 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 349101003954 substrate binding pocket [chemical binding]; other site 349101003955 membrane-bound complex binding site; other site 349101003956 hinge residues; other site 349101003957 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 349101003958 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 349101003959 ligand binding site [chemical binding]; other site 349101003960 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 349101003961 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 349101003962 structural tetrad; other site 349101003963 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 349101003964 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 349101003965 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101003966 Walker A/P-loop; other site 349101003967 ATP binding site [chemical binding]; other site 349101003968 Q-loop/lid; other site 349101003969 ABC transporter signature motif; other site 349101003970 Walker B; other site 349101003971 D-loop; other site 349101003972 H-loop/switch region; other site 349101003973 ABC-2 type transporter; Region: ABC2_membrane; cl11417 349101003974 Single-minded protein C-terminus; Region: SIM_C; pfam06621 349101003975 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349101003976 Predicted secreted protein [Function unknown]; Region: COG5501 349101003977 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 349101003978 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 349101003979 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349101003980 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 349101003981 active site 349101003982 phosphorylation site [posttranslational modification] 349101003983 intermolecular recognition site; other site 349101003984 dimerization interface [polypeptide binding]; other site 349101003985 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 349101003986 DNA binding residues [nucleotide binding] 349101003987 dimerization interface [polypeptide binding]; other site 349101003988 Uncharacterized conserved protein [Function unknown]; Region: COG3287 349101003989 FIST N domain; Region: FIST; cl10701 349101003990 FIST C domain; Region: FIST_C; pfam10442 349101003991 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 349101003992 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 349101003993 dimer interface [polypeptide binding]; other site 349101003994 phosphorylation site [posttranslational modification] 349101003995 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 349101003996 ATP binding site [chemical binding]; other site 349101003997 Mg2+ binding site [ion binding]; other site 349101003998 G-X-G motif; other site 349101003999 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; cl09944 349101004000 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 349101004001 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 349101004002 Walker A/P-loop; other site 349101004003 ATP binding site [chemical binding]; other site 349101004004 Q-loop/lid; other site 349101004005 ABC transporter signature motif; other site 349101004006 Walker B; other site 349101004007 D-loop; other site 349101004008 H-loop/switch region; other site 349101004009 NMT1-like family; Region: NMT1_2; cl15260 349101004010 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349101004011 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 349101004012 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 349101004013 active site 349101004014 phosphorylation site [posttranslational modification] 349101004015 intermolecular recognition site; other site 349101004016 dimerization interface [polypeptide binding]; other site 349101004017 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 349101004018 DNA binding site [nucleotide binding] 349101004019 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 349101004020 PhoU domain; Region: PhoU; pfam01895 349101004021 PhoU domain; Region: PhoU; pfam01895 349101004022 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 349101004023 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 349101004024 Walker A/P-loop; other site 349101004025 ATP binding site [chemical binding]; other site 349101004026 Q-loop/lid; other site 349101004027 ABC transporter signature motif; other site 349101004028 Walker B; other site 349101004029 D-loop; other site 349101004030 H-loop/switch region; other site 349101004031 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 349101004032 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 349101004033 dimer interface [polypeptide binding]; other site 349101004034 conserved gate region; other site 349101004035 putative PBP binding loops; other site 349101004036 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 349101004037 ABC-ATPase subunit interface; other site 349101004038 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 349101004039 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 349101004040 dimer interface [polypeptide binding]; other site 349101004041 conserved gate region; other site 349101004042 putative PBP binding loops; other site 349101004043 ABC-ATPase subunit interface; other site 349101004044 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101004045 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 349101004046 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 349101004047 dimerization interface [polypeptide binding]; other site 349101004048 putative DNA binding site [nucleotide binding]; other site 349101004049 putative Zn2+ binding site [ion binding]; other site 349101004050 Flavin Reductases; Region: FlaRed; cl00801 349101004051 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 349101004052 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 349101004053 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 349101004054 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 349101004055 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 349101004056 trimer interface [polypeptide binding]; other site 349101004057 active site 349101004058 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 349101004059 trimer interface [polypeptide binding]; other site 349101004060 active site 349101004061 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 349101004062 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 349101004063 DNA binding residues [nucleotide binding] 349101004064 Herpes DNA replication accessory factor; Region: Herpes_DNAp_acc; pfam04929 349101004065 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 349101004066 IHF dimer interface [polypeptide binding]; other site 349101004067 IHF - DNA interface [nucleotide binding]; other site 349101004068 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 349101004069 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 349101004070 dimer interface [polypeptide binding]; other site 349101004071 active site 349101004072 CoA binding pocket [chemical binding]; other site 349101004073 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 349101004074 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 349101004075 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 349101004076 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 349101004077 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 349101004078 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 349101004079 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349101004080 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 349101004081 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 349101004082 Ligand Binding Site [chemical binding]; other site 349101004083 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 349101004084 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349101004085 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 349101004086 active site 349101004087 phosphorylation site [posttranslational modification] 349101004088 intermolecular recognition site; other site 349101004089 dimerization interface [polypeptide binding]; other site 349101004090 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 349101004091 DNA binding site [nucleotide binding] 349101004092 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 349101004093 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 349101004094 nucleotide binding pocket [chemical binding]; other site 349101004095 K-X-D-G motif; other site 349101004096 catalytic site [active] 349101004097 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 349101004098 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 349101004099 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 349101004100 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 349101004101 generic binding surface II; other site 349101004102 ssDNA binding site; other site 349101004103 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 349101004104 ATP binding site [chemical binding]; other site 349101004105 putative Mg++ binding site [ion binding]; other site 349101004106 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 349101004107 nucleotide binding region [chemical binding]; other site 349101004108 ATP-binding site [chemical binding]; other site 349101004109 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 349101004110 trimerization site [polypeptide binding]; other site 349101004111 active site 349101004112 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 349101004113 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349101004114 active site 349101004115 HIGH motif; other site 349101004116 nucleotide binding site [chemical binding]; other site 349101004117 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349101004118 active site 349101004119 KMSKS motif; other site 349101004120 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 349101004121 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101004122 DNA gyrase subunit A; Validated; Region: PRK05560 349101004123 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 349101004124 CAP-like domain; other site 349101004125 active site 349101004126 primary dimer interface [polypeptide binding]; other site 349101004127 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349101004128 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349101004129 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349101004130 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349101004131 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349101004132 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349101004133 Usg-like family; Region: Usg; cl11567 349101004134 Arginase family; Region: Arginase; cl00306 349101004135 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 349101004136 Cytochrome C biogenesis protein; Region: CcmH; cl01179 349101004137 enoyl-CoA hydratase; Provisional; Region: PRK08140 349101004138 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 349101004139 substrate binding site [chemical binding]; other site 349101004140 oxyanion hole (OAH) forming residues; other site 349101004141 trimer interface [polypeptide binding]; other site 349101004142 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; cl15762 349101004143 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 349101004144 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 349101004145 putative valine binding site [chemical binding]; other site 349101004146 dimer interface [polypeptide binding]; other site 349101004147 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 349101004148 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 349101004149 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 349101004150 PYR/PP interface [polypeptide binding]; other site 349101004151 dimer interface [polypeptide binding]; other site 349101004152 TPP binding site [chemical binding]; other site 349101004153 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 349101004154 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 349101004155 TPP-binding site [chemical binding]; other site 349101004156 dimer interface [polypeptide binding]; other site 349101004157 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 349101004158 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 349101004159 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 349101004160 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 349101004161 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349101004162 RDD family; Region: RDD; cl00746 349101004163 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 349101004164 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 349101004165 putative deacylase active site [active] 349101004166 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 349101004167 metal binding triad; other site 349101004168 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 349101004169 Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]; Region: GlnE; COG1391 349101004170 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 349101004171 metal binding triad; other site 349101004172 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 349101004173 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 349101004174 active site 349101004175 intersubunit interface [polypeptide binding]; other site 349101004176 catalytic residue [active] 349101004177 Dehydratase family; Region: ILVD_EDD; cl00340 349101004178 6-phosphogluconate dehydratase; Region: edd; TIGR01196 349101004179 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 349101004180 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 349101004181 putative RNA binding site [nucleotide binding]; other site 349101004182 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 349101004183 Peptidase family M48; Region: Peptidase_M48; cl12018 349101004184 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 349101004185 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 349101004186 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 349101004187 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349101004188 Coenzyme A binding pocket [chemical binding]; other site 349101004189 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 349101004190 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 349101004191 Walker A motif; other site 349101004192 ATP binding site [chemical binding]; other site 349101004193 Walker B motif; other site 349101004194 arginine finger; other site 349101004195 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 349101004196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101004197 salicylate hydroxylase; Provisional; Region: PRK06475 349101004198 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 349101004199 CoenzymeA binding site [chemical binding]; other site 349101004200 subunit interaction site [polypeptide binding]; other site 349101004201 PHB binding site; other site 349101004202 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 349101004203 putative catalytic site [active] 349101004204 putative phosphate binding site [ion binding]; other site 349101004205 active site 349101004206 metal binding site A [ion binding]; metal-binding site 349101004207 DNA binding site [nucleotide binding] 349101004208 putative AP binding site [nucleotide binding]; other site 349101004209 putative metal binding site B [ion binding]; other site 349101004210 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 349101004211 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 349101004212 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 349101004213 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 349101004214 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 349101004215 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH2; cd08183 349101004216 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 349101004217 putative active site [active] 349101004218 metal binding site [ion binding]; metal-binding site 349101004219 glycerol kinase; Provisional; Region: glpK; PRK00047 349101004220 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 349101004221 N- and C-terminal domain interface [polypeptide binding]; other site 349101004222 active site 349101004223 MgATP binding site [chemical binding]; other site 349101004224 catalytic site [active] 349101004225 metal binding site [ion binding]; metal-binding site 349101004226 glycerol binding site [chemical binding]; other site 349101004227 homotetramer interface [polypeptide binding]; other site 349101004228 homodimer interface [polypeptide binding]; other site 349101004229 FBP binding site [chemical binding]; other site 349101004230 protein IIAGlc interface [polypeptide binding]; other site 349101004231 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349101004232 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 349101004233 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 349101004234 dimer interface [polypeptide binding]; other site 349101004235 conserved gate region; other site 349101004236 putative PBP binding loops; other site 349101004237 ABC-ATPase subunit interface; other site 349101004238 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 349101004239 dimer interface [polypeptide binding]; other site 349101004240 conserved gate region; other site 349101004241 putative PBP binding loops; other site 349101004242 ABC-ATPase subunit interface; other site 349101004243 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 349101004244 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 349101004245 Walker A/P-loop; other site 349101004246 ATP binding site [chemical binding]; other site 349101004247 Q-loop/lid; other site 349101004248 ABC transporter signature motif; other site 349101004249 Walker B; other site 349101004250 D-loop; other site 349101004251 H-loop/switch region; other site 349101004252 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 349101004253 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 349101004254 Walker A/P-loop; other site 349101004255 ATP binding site [chemical binding]; other site 349101004256 Q-loop/lid; other site 349101004257 ABC transporter signature motif; other site 349101004258 Walker B; other site 349101004259 D-loop; other site 349101004260 H-loop/switch region; other site 349101004261 TOBE domain; Region: TOBE_2; cl01440 349101004262 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 349101004263 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 349101004264 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 349101004265 Trp docking motif [polypeptide binding]; other site 349101004266 putative active site [active] 349101004267 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 349101004268 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 349101004269 BON domain; Region: BON; cl02771 349101004270 response regulator; Provisional; Region: PRK13435 349101004271 DNA photolyase; Region: DNA_photolyase; pfam00875 349101004272 MgtC family; Region: MgtC; pfam02308 349101004273 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 349101004274 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 349101004275 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 349101004276 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 349101004277 active site 349101004278 DNA binding site [nucleotide binding] 349101004279 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 349101004280 DNA binding site [nucleotide binding] 349101004281 Glycoside hydrolase families 71, 99, and related domains; Region: GH99_GH71_like; cl01529 349101004282 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 349101004283 nucleotide binding site [chemical binding]; other site 349101004284 RNA polymerase sigma factor; Provisional; Region: PRK11924 349101004285 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349101004286 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 349101004287 DNA binding residues [nucleotide binding] 349101004288 Acyl transferase domain; Region: Acyl_transf_1; cl08282 349101004289 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 349101004290 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 349101004291 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 349101004292 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 349101004293 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 349101004294 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 349101004295 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101004296 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 349101004297 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 349101004298 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 349101004299 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 349101004300 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 349101004301 OpgC protein; Region: OpgC_C; cl00792 349101004302 Acyltransferase family; Region: Acyl_transf_3; pfam01757 349101004303 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 349101004304 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 349101004305 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 349101004306 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 349101004307 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349101004308 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 349101004309 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 349101004310 ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to...; Region: ABCC_ATM1_transporter; cd03253 349101004311 Walker A/P-loop; other site 349101004312 ATP binding site [chemical binding]; other site 349101004313 Q-loop/lid; other site 349101004314 ABC transporter signature motif; other site 349101004315 Walker B; other site 349101004316 D-loop; other site 349101004317 H-loop/switch region; other site 349101004318 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 349101004319 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 349101004320 Trp docking motif [polypeptide binding]; other site 349101004321 active site 349101004322 PQQ-like domain; Region: PQQ_2; pfam13360 349101004323 GTP-binding protein Der; Reviewed; Region: PRK00093 349101004324 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 349101004325 G1 box; other site 349101004326 GTP/Mg2+ binding site [chemical binding]; other site 349101004327 Switch I region; other site 349101004328 G2 box; other site 349101004329 Switch II region; other site 349101004330 G3 box; other site 349101004331 G4 box; other site 349101004332 G5 box; other site 349101004333 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 349101004334 G1 box; other site 349101004335 GTP/Mg2+ binding site [chemical binding]; other site 349101004336 Switch I region; other site 349101004337 G2 box; other site 349101004338 G3 box; other site 349101004339 Switch II region; other site 349101004340 G4 box; other site 349101004341 G5 box; other site 349101004342 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 349101004343 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101004344 Walker A/P-loop; other site 349101004345 ATP binding site [chemical binding]; other site 349101004346 Q-loop/lid; other site 349101004347 ABC transporter signature motif; other site 349101004348 Walker B; other site 349101004349 D-loop; other site 349101004350 H-loop/switch region; other site 349101004351 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349101004352 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101004353 Walker A/P-loop; other site 349101004354 ATP binding site [chemical binding]; other site 349101004355 Q-loop/lid; other site 349101004356 ABC transporter signature motif; other site 349101004357 Walker B; other site 349101004358 D-loop; other site 349101004359 H-loop/switch region; other site 349101004360 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349101004361 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 349101004362 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349101004363 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349101004364 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 349101004365 dimer interface [polypeptide binding]; other site 349101004366 conserved gate region; other site 349101004367 putative PBP binding loops; other site 349101004368 ABC-ATPase subunit interface; other site 349101004369 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_17; cd08503 349101004370 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 349101004371 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101004372 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 349101004373 putative nucleotide binding site [chemical binding]; other site 349101004374 uridine monophosphate binding site [chemical binding]; other site 349101004375 homohexameric interface [polypeptide binding]; other site 349101004376 ribosome recycling factor; Reviewed; Region: frr; PRK00083 349101004377 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 349101004378 hinge region; other site 349101004379 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 349101004380 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 349101004381 catalytic residue [active] 349101004382 putative FPP diphosphate binding site; other site 349101004383 putative FPP binding hydrophobic cleft; other site 349101004384 dimer interface [polypeptide binding]; other site 349101004385 putative IPP diphosphate binding site; other site 349101004386 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 349101004387 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 349101004388 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 349101004389 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 349101004390 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 349101004391 RIP metalloprotease RseP; Region: TIGR00054 349101004392 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 349101004393 active site 349101004394 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 349101004395 protein binding site [polypeptide binding]; other site 349101004396 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 349101004397 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 349101004398 putative substrate binding region [chemical binding]; other site 349101004399 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 349101004400 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 349101004401 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 349101004402 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 349101004403 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 349101004404 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 349101004405 Surface antigen; Region: Bac_surface_Ag; cl03097 349101004406 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 349101004407 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 349101004408 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 349101004409 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 349101004410 active site 349101004411 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 349101004412 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 349101004413 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 349101004414 ABC transporter ATPase component; Reviewed; Region: PRK11147 349101004415 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 349101004416 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 349101004417 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 349101004418 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; cl01155 349101004419 Helix-turn-helix domains; Region: HTH; cl00088 349101004420 AsnC family; Region: AsnC_trans_reg; pfam01037 349101004421 Protein of unknown function (DUF419); Region: DUF419; cl15265 349101004422 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 349101004423 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349101004424 active site 349101004425 HIGH motif; other site 349101004426 nucleotide binding site [chemical binding]; other site 349101004427 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 349101004428 KMSKS motif; other site 349101004429 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 349101004430 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 349101004431 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 349101004432 active site 349101004433 catalytic residues [active] 349101004434 metal binding site [ion binding]; metal-binding site 349101004435 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 349101004436 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 349101004437 S-adenosylmethionine binding site [chemical binding]; other site 349101004438 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 349101004439 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349101004440 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 349101004441 minor groove reading motif; other site 349101004442 helix-hairpin-helix signature motif; other site 349101004443 substrate binding pocket [chemical binding]; other site 349101004444 active site 349101004445 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 349101004446 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 349101004447 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 349101004448 active site 349101004449 Helix-turn-helix domains; Region: HTH; cl00088 349101004450 Helix-turn-helix domains; Region: HTH; cl00088 349101004451 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 349101004452 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 349101004453 putative substrate translocation pore; other site 349101004454 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 349101004455 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 349101004456 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 349101004457 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 349101004458 putative active site [active] 349101004459 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 349101004460 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 349101004461 active site 349101004462 dimer interface [polypeptide binding]; other site 349101004463 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 349101004464 dimer interface [polypeptide binding]; other site 349101004465 active site 349101004466 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_2; cd06150 349101004467 homotrimer interaction site [polypeptide binding]; other site 349101004468 putative active site [active] 349101004469 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 349101004470 active site residue [active] 349101004471 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 349101004472 active site residue [active] 349101004473 putative inner membrane protein; Provisional; Region: PRK11099 349101004474 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 349101004475 Cytochrome c; Region: Cytochrom_C; cl11414 349101004476 Cytochrome c; Region: Cytochrom_C; cl11414 349101004477 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 349101004478 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 349101004479 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 349101004480 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 349101004481 nickel responsive regulator; Provisional; Region: PRK02967 349101004482 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 349101004483 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 349101004484 catalytic loop [active] 349101004485 iron binding site [ion binding]; other site 349101004486 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 349101004487 substrate binding pocket [chemical binding]; other site 349101004488 dimer interface [polypeptide binding]; other site 349101004489 inhibitor binding site; inhibition site 349101004490 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 349101004491 FAD binding site [chemical binding]; other site 349101004492 Virulence factor; Region: Virulence_fact; pfam13769 349101004493 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 349101004494 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 349101004495 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; cl16911 349101004496 Peptidase M15; Region: Peptidase_M15_3; cl01194 349101004497 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 349101004498 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 349101004499 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 349101004500 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 349101004501 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 349101004502 trimer interface [polypeptide binding]; other site 349101004503 active site 349101004504 UDP-GlcNAc binding site [chemical binding]; other site 349101004505 lipid binding site [chemical binding]; lipid-binding site 349101004506 Phosphopantetheine attachment site; Region: PP-binding; cl09936 349101004507 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 349101004508 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 349101004509 dimer interface [polypeptide binding]; other site 349101004510 active site 349101004511 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 349101004512 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 349101004513 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 349101004514 tetramer interface [polypeptide binding]; other site 349101004515 heme binding pocket [chemical binding]; other site 349101004516 NADPH binding site [chemical binding]; other site 349101004517 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 349101004518 Helix-turn-helix domains; Region: HTH; cl00088 349101004519 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 349101004520 dimerization interface [polypeptide binding]; other site 349101004521 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 349101004522 catalytic triad [active] 349101004523 dimer interface [polypeptide binding]; other site 349101004524 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 349101004525 amphipathic channel; other site 349101004526 Asn-Pro-Ala signature motifs; other site 349101004527 lipoyl synthase; Provisional; Region: PRK05481 349101004528 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 349101004529 FeS/SAM binding site; other site 349101004530 Cytochrome c; Region: Cytochrom_C; cl11414 349101004531 Cytochrome C'; Region: Cytochrom_C_2; cl01610 349101004532 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349101004533 active site 349101004534 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 349101004535 putative coenzyme Q binding site [chemical binding]; other site 349101004536 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 349101004537 substrate binding site [chemical binding]; other site 349101004538 hexamer interface [polypeptide binding]; other site 349101004539 metal binding site [ion binding]; metal-binding site 349101004540 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101004541 FAD dependent oxidoreductase; Region: DAO; pfam01266 349101004542 elongation factor Ts; Provisional; Region: tsf; PRK09377 349101004543 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 349101004544 Elongation factor TS; Region: EF_TS; pfam00889 349101004545 Elongation factor TS; Region: EF_TS; pfam00889 349101004546 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 349101004547 rRNA interaction site [nucleotide binding]; other site 349101004548 S8 interaction site; other site 349101004549 putative laminin-1 binding site; other site 349101004550 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 349101004551 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 349101004552 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101004553 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 349101004554 NAD(P) binding site [chemical binding]; other site 349101004555 active site 349101004556 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 349101004557 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_14; cd08497 349101004558 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 349101004559 Protein export membrane protein; Region: SecD_SecF; cl14618 349101004560 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349101004561 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349101004562 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349101004563 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349101004564 Helix-turn-helix domains; Region: HTH; cl00088 349101004565 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 349101004566 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 349101004567 catalytic residues [active] 349101004568 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 349101004569 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 349101004570 putative substrate translocation pore; other site 349101004571 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 349101004572 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 349101004573 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 349101004574 ATP binding site [chemical binding]; other site 349101004575 putative Mg++ binding site [ion binding]; other site 349101004576 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 349101004577 nucleotide binding region [chemical binding]; other site 349101004578 ATP-binding site [chemical binding]; other site 349101004579 TRCF domain; Region: TRCF; cl04088 349101004580 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 349101004581 dimer interface [polypeptide binding]; other site 349101004582 active site 349101004583 aspartate-rich active site metal binding site; other site 349101004584 allosteric magnesium binding site [ion binding]; other site 349101004585 Schiff base residues; other site 349101004586 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 349101004587 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 349101004588 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101004589 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101004590 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 349101004591 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 349101004592 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 349101004593 active site 349101004594 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 349101004595 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 349101004596 HflX GTPase family; Region: HflX; cd01878 349101004597 G1 box; other site 349101004598 GTP/Mg2+ binding site [chemical binding]; other site 349101004599 Switch I region; other site 349101004600 G2 box; other site 349101004601 G3 box; other site 349101004602 Switch II region; other site 349101004603 G4 box; other site 349101004604 G5 box; other site 349101004605 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 349101004606 Sm1 motif; other site 349101004607 intra - hexamer interaction site; other site 349101004608 inter - hexamer interaction site [polypeptide binding]; other site 349101004609 nucleotide binding pocket [chemical binding]; other site 349101004610 Sm2 motif; other site 349101004611 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 349101004612 Cation transport protein; Region: TrkH; cl10514 349101004613 Cation transport protein; Region: TrkH; cl10514 349101004614 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 349101004615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101004616 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 349101004617 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101004618 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 349101004619 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 349101004620 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 349101004621 active site 349101004622 phosphorylation site [posttranslational modification] 349101004623 intermolecular recognition site; other site 349101004624 dimerization interface [polypeptide binding]; other site 349101004625 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 349101004626 Walker A motif; other site 349101004627 ATP binding site [chemical binding]; other site 349101004628 Walker B motif; other site 349101004629 arginine finger; other site 349101004630 Helix-turn-helix domains; Region: HTH; cl00088 349101004631 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 349101004632 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 349101004633 dimerization interface [polypeptide binding]; other site 349101004634 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 349101004635 putative active site [active] 349101004636 heme pocket [chemical binding]; other site 349101004637 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 349101004638 dimer interface [polypeptide binding]; other site 349101004639 phosphorylation site [posttranslational modification] 349101004640 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 349101004641 ATP binding site [chemical binding]; other site 349101004642 Mg2+ binding site [ion binding]; other site 349101004643 G-X-G motif; other site 349101004644 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 349101004645 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 349101004646 active site 349101004647 phosphorylation site [posttranslational modification] 349101004648 intermolecular recognition site; other site 349101004649 dimerization interface [polypeptide binding]; other site 349101004650 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 349101004651 Walker A motif; other site 349101004652 ATP binding site [chemical binding]; other site 349101004653 Walker B motif; other site 349101004654 arginine finger; other site 349101004655 Helix-turn-helix domains; Region: HTH; cl00088 349101004656 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 349101004657 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 349101004658 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 349101004659 dimer interface [polypeptide binding]; other site 349101004660 phosphorylation site [posttranslational modification] 349101004661 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 349101004662 ATP binding site [chemical binding]; other site 349101004663 Mg2+ binding site [ion binding]; other site 349101004664 G-X-G motif; other site 349101004665 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 349101004666 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 349101004667 FMN binding site [chemical binding]; other site 349101004668 active site 349101004669 catalytic residues [active] 349101004670 substrate binding site [chemical binding]; other site 349101004671 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 349101004672 substrate binding site; other site 349101004673 dimer interface; other site 349101004674 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 349101004675 homotrimer interaction site [polypeptide binding]; other site 349101004676 zinc binding site [ion binding]; other site 349101004677 CDP-binding sites; other site 349101004678 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 349101004679 tetramer interfaces [polypeptide binding]; other site 349101004680 binuclear metal-binding site [ion binding]; other site 349101004681 Competence-damaged protein; Region: CinA; cl00666 349101004682 HI0933-like protein; Region: HI0933_like; pfam03486 349101004683 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101004684 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101004685 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 349101004686 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 349101004687 homodimer interface [polypeptide binding]; other site 349101004688 Walker A motif; other site 349101004689 ATP binding site [chemical binding]; other site 349101004690 hydroxycobalamin binding site [chemical binding]; other site 349101004691 Walker B motif; other site 349101004692 NnrS protein; Region: NnrS; cl01258 349101004693 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349101004694 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 349101004695 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101004696 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 349101004697 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 349101004698 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 349101004699 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 349101004700 Precorrin-8X methylmutase; Region: CbiC; pfam02570 349101004701 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 349101004702 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 349101004703 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 349101004704 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 349101004705 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 349101004706 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 349101004707 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 349101004708 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 349101004709 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; cl16911 349101004710 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 349101004711 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 349101004712 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 349101004713 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 349101004714 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 349101004715 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 349101004716 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 349101004717 active site 349101004718 dimer interface [polypeptide binding]; other site 349101004719 metal binding site [ion binding]; metal-binding site 349101004720 shikimate kinase; Provisional; Region: PRK13946 349101004721 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 349101004722 ADP binding site [chemical binding]; other site 349101004723 magnesium binding site [ion binding]; other site 349101004724 putative shikimate binding site; other site 349101004725 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 349101004726 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 349101004727 active site 349101004728 DNA binding site [nucleotide binding] 349101004729 Int/Topo IB signature motif; other site 349101004730 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 349101004731 Domain of unknown function DUF21; Region: DUF21; pfam01595 349101004732 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 349101004733 Transporter associated domain; Region: CorC_HlyC; cl08393 349101004734 Helix-turn-helix domains; Region: HTH; cl00088 349101004735 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 349101004736 Protein of unknown function (DUF330); Region: DUF330; cl01135 349101004737 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 349101004738 mce related protein; Region: MCE; pfam02470 349101004739 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 349101004740 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 349101004741 Walker A/P-loop; other site 349101004742 ATP binding site [chemical binding]; other site 349101004743 Q-loop/lid; other site 349101004744 ABC transporter signature motif; other site 349101004745 Walker B; other site 349101004746 D-loop; other site 349101004747 H-loop/switch region; other site 349101004748 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 349101004749 anti sigma factor interaction site; other site 349101004750 regulatory phosphorylation site [posttranslational modification]; other site 349101004751 Permease; Region: Permease; cl00510 349101004752 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 349101004753 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 349101004754 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 349101004755 DNA binding site [nucleotide binding] 349101004756 Int/Topo IB signature motif; other site 349101004757 active site 349101004758 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 349101004759 Found in ATP-dependent protease La (LON); Region: LON; smart00464 349101004760 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 349101004761 Walker A motif; other site 349101004762 ATP binding site [chemical binding]; other site 349101004763 Walker B motif; other site 349101004764 arginine finger; other site 349101004765 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 349101004766 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; cd02933 349101004767 FMN binding site [chemical binding]; other site 349101004768 active site 349101004769 substrate binding site [chemical binding]; other site 349101004770 catalytic residue [active] 349101004771 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 349101004772 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 349101004773 multidrug efflux protein; Reviewed; Region: PRK09579 349101004774 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349101004775 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349101004776 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349101004777 Helix-turn-helix domains; Region: HTH; cl00088 349101004778 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 349101004779 GAF domain; Region: GAF; cl15785 349101004780 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 349101004781 Walker A motif; other site 349101004782 ATP binding site [chemical binding]; other site 349101004783 Walker B motif; other site 349101004784 arginine finger; other site 349101004785 Helix-turn-helix domains; Region: HTH; cl00088 349101004786 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 349101004787 D-arabinose dehydrogenase; Region: arabinose_DH_like; cd05284 349101004788 NAD binding site [chemical binding]; other site 349101004789 substrate binding site [chemical binding]; other site 349101004790 catalytic Zn binding site [ion binding]; other site 349101004791 structural Zn binding site [ion binding]; other site 349101004792 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 349101004793 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 349101004794 ATP/Mg binding site [chemical binding]; other site 349101004795 ring oligomerisation interface [polypeptide binding]; other site 349101004796 stacking interactions; other site 349101004797 hinge regions; other site 349101004798 Domain of unknown function DUF59; Region: DUF59; cl00941 349101004799 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; cd01292 349101004800 active site 349101004801 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 349101004802 Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain; Region: AAMH_B; cd01058 349101004803 dimerization interface [polypeptide binding]; other site 349101004804 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 349101004805 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 349101004806 catalytic loop [active] 349101004807 iron binding site [ion binding]; other site 349101004808 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 349101004809 FAD binding pocket [chemical binding]; other site 349101004810 conserved FAD binding motif [chemical binding]; other site 349101004811 phosphate binding motif [ion binding]; other site 349101004812 beta-alpha-beta structure motif; other site 349101004813 NAD binding pocket [chemical binding]; other site 349101004814 Aromatic and Alkene Monooxygenase Hydroxylase, subunit A, ferritin-like diiron-binding domain; Region: AAMH_A; cd01057 349101004815 dimerization interface [polypeptide binding]; other site 349101004816 putative path to active site cavity [active] 349101004817 diiron center [ion binding]; other site 349101004818 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 349101004819 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 349101004820 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 349101004821 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 349101004822 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 349101004823 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 349101004824 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 349101004825 active site 349101004826 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 349101004827 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 349101004828 Walker A/P-loop; other site 349101004829 ATP binding site [chemical binding]; other site 349101004830 Q-loop/lid; other site 349101004831 ABC transporter signature motif; other site 349101004832 Walker B; other site 349101004833 D-loop; other site 349101004834 H-loop/switch region; other site 349101004835 TOBE domain; Region: TOBE_2; cl01440 349101004836 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349101004837 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 349101004838 dimer interface [polypeptide binding]; other site 349101004839 ABC-ATPase subunit interface; other site 349101004840 putative PBP binding loops; other site 349101004841 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 349101004842 dimer interface [polypeptide binding]; other site 349101004843 conserved gate region; other site 349101004844 putative PBP binding loops; other site 349101004845 ABC-ATPase subunit interface; other site 349101004846 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349101004847 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101004848 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 349101004849 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 349101004850 glucokinase, proteobacterial type; Region: glk; TIGR00749 349101004851 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 349101004852 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 349101004853 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 349101004854 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 349101004855 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 349101004856 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 349101004857 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 349101004858 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 349101004859 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 349101004860 putative hydrophobic ligand binding site [chemical binding]; other site 349101004861 PAS fold; Region: PAS_7; pfam12860 349101004862 PAS fold; Region: PAS_7; pfam12860 349101004863 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 349101004864 dimer interface [polypeptide binding]; other site 349101004865 phosphorylation site [posttranslational modification] 349101004866 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 349101004867 ATP binding site [chemical binding]; other site 349101004868 Mg2+ binding site [ion binding]; other site 349101004869 G-X-G motif; other site 349101004870 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 349101004871 Response regulator receiver domain; Region: Response_reg; pfam00072 349101004872 active site 349101004873 phosphorylation site [posttranslational modification] 349101004874 intermolecular recognition site; other site 349101004875 dimerization interface [polypeptide binding]; other site 349101004876 Uncharacterized conserved protein [Function unknown]; Region: COG3287 349101004877 FIST N domain; Region: FIST; cl10701 349101004878 FIST C domain; Region: FIST_C; pfam10442 349101004879 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349101004880 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 349101004881 active site 349101004882 phosphorylation site [posttranslational modification] 349101004883 intermolecular recognition site; other site 349101004884 dimerization interface [polypeptide binding]; other site 349101004885 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 349101004886 DNA binding residues [nucleotide binding] 349101004887 dimerization interface [polypeptide binding]; other site 349101004888 phosphoglucomutase; Region: PLN02307 349101004889 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 349101004890 substrate binding site [chemical binding]; other site 349101004891 dimer interface [polypeptide binding]; other site 349101004892 active site 349101004893 metal binding site [ion binding]; metal-binding site 349101004894 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 349101004895 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 349101004896 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 349101004897 active site 349101004898 catalytic site [active] 349101004899 glycogen synthase; Provisional; Region: glgA; PRK00654 349101004900 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 349101004901 ADP-binding pocket [chemical binding]; other site 349101004902 homodimer interface [polypeptide binding]; other site 349101004903 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 349101004904 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 349101004905 ligand binding site; other site 349101004906 oligomer interface; other site 349101004907 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 349101004908 dimer interface [polypeptide binding]; other site 349101004909 N-terminal domain interface [polypeptide binding]; other site 349101004910 sulfate 1 binding site; other site 349101004911 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 349101004912 homodimer interface [polypeptide binding]; other site 349101004913 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 349101004914 active site pocket [active] 349101004915 Helix-turn-helix domains; Region: HTH; cl00088 349101004916 Predicted transcriptional regulator [Transcription]; Region: COG1959 349101004917 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 349101004918 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 349101004919 DNA binding residues [nucleotide binding] 349101004920 dimer interface [polypeptide binding]; other site 349101004921 copper binding site [ion binding]; other site 349101004922 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 349101004923 metal-binding site [ion binding] 349101004924 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 349101004925 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 349101004926 metal-binding site [ion binding] 349101004927 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349101004928 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 349101004929 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 349101004930 metal-binding site [ion binding] 349101004931 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 349101004932 active site 349101004933 multimer interface [polypeptide binding]; other site 349101004934 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 349101004935 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 349101004936 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 349101004937 ABC transporter; Region: ABC_tran_2; pfam12848 349101004938 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 349101004939 MarC family integral membrane protein; Region: MarC; cl00919 349101004940 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 349101004941 catalytic motif [active] 349101004942 Catalytic residue [active] 349101004943 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 349101004944 multifunctional aminopeptidase A; Provisional; Region: PRK00913 349101004945 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 349101004946 interface (dimer of trimers) [polypeptide binding]; other site 349101004947 Substrate-binding/catalytic site; other site 349101004948 Zn-binding sites [ion binding]; other site 349101004949 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 349101004950 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 349101004951 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 349101004952 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 349101004953 organic solvent tolerance protein; Provisional; Region: PRK04423 349101004954 Organic solvent tolerance protein; Region: OstA_C; pfam04453 349101004955 SurA N-terminal domain; Region: SurA_N_3; cl07813 349101004956 PPIC-type PPIASE domain; Region: Rotamase; cl08278 349101004957 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 349101004958 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 349101004959 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; cl16911 349101004960 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 349101004961 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 349101004962 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; cl16911 349101004963 peptide chain release factor 1; Validated; Region: prfA; PRK00591 349101004964 RF-1 domain; Region: RF-1; cl02875 349101004965 RF-1 domain; Region: RF-1; cl02875 349101004966 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 349101004967 Arginase family; Region: Arginase; cl00306 349101004968 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 349101004969 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 349101004970 metal binding site [ion binding]; metal-binding site 349101004971 putative dimer interface [polypeptide binding]; other site 349101004972 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 349101004973 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 349101004974 homodimer interface [polypeptide binding]; other site 349101004975 metal binding site [ion binding]; metal-binding site 349101004976 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs'; Region: NTP-PPase_MazG_Cterm; cd11529 349101004977 homodimer interface [polypeptide binding]; other site 349101004978 active site 349101004979 putative chemical substrate binding site [chemical binding]; other site 349101004980 metal binding site [ion binding]; metal-binding site 349101004981 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101004982 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 349101004983 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 349101004984 active site 349101004985 tetramer interface [polypeptide binding]; other site 349101004986 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 349101004987 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 349101004988 dimer interface [polypeptide binding]; other site 349101004989 phosphorylation site [posttranslational modification] 349101004990 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 349101004991 ATP binding site [chemical binding]; other site 349101004992 Mg2+ binding site [ion binding]; other site 349101004993 G-X-G motif; other site 349101004994 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 349101004995 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 349101004996 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349101004997 catalytic residue [active] 349101004998 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 349101004999 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 349101005000 trimer interface [polypeptide binding]; other site 349101005001 putative metal binding site [ion binding]; other site 349101005002 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 349101005003 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 349101005004 catalytic site [active] 349101005005 G-X2-G-X-G-K; other site 349101005006 hypothetical protein; Provisional; Region: PRK11820 349101005007 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 349101005008 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 349101005009 PAS domain; Region: PAS_5; pfam07310 349101005010 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 349101005011 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 349101005012 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 349101005013 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 349101005014 conserved cys residue [active] 349101005015 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349101005016 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349101005017 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 349101005018 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_11; cd06346 349101005019 putative ligand binding site [chemical binding]; other site 349101005020 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 349101005021 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 349101005022 Walker A/P-loop; other site 349101005023 ATP binding site [chemical binding]; other site 349101005024 Q-loop/lid; other site 349101005025 ABC transporter signature motif; other site 349101005026 Walker B; other site 349101005027 D-loop; other site 349101005028 H-loop/switch region; other site 349101005029 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 349101005030 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 349101005031 Walker A/P-loop; other site 349101005032 ATP binding site [chemical binding]; other site 349101005033 Q-loop/lid; other site 349101005034 ABC transporter signature motif; other site 349101005035 Walker B; other site 349101005036 D-loop; other site 349101005037 H-loop/switch region; other site 349101005038 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 349101005039 TM-ABC transporter signature motif; other site 349101005040 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 349101005041 TM-ABC transporter signature motif; other site 349101005042 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 349101005043 metal-binding site 349101005044 Hint domain; Region: Hint_2; pfam13403 349101005045 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 349101005046 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 349101005047 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101005048 DNA-binding site [nucleotide binding]; DNA binding site 349101005049 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 349101005050 UTRA domain; Region: UTRA; cl01230 349101005051 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 349101005052 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_E; cd01313 349101005053 active site 349101005054 imidazolonepropionase; Validated; Region: PRK09356 349101005055 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 349101005056 active site 349101005057 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 349101005058 active sites [active] 349101005059 tetramer interface [polypeptide binding]; other site 349101005060 urocanate hydratase; Provisional; Region: PRK05414 349101005061 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 349101005062 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 349101005063 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 349101005064 ScpA/B protein; Region: ScpA_ScpB; cl00598 349101005065 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 349101005066 Sporulation related domain; Region: SPOR; cl10051 349101005067 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 349101005068 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 349101005069 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 349101005070 active site 349101005071 HIGH motif; other site 349101005072 KMSK motif region; other site 349101005073 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 349101005074 tRNA binding surface [nucleotide binding]; other site 349101005075 anticodon binding site; other site 349101005076 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 349101005077 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 349101005078 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 349101005079 CcmE; Region: CcmE; cl00994 349101005080 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 349101005081 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101005082 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 349101005083 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 349101005084 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 349101005085 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 349101005086 dimer interface [polypeptide binding]; other site 349101005087 PYR/PP interface [polypeptide binding]; other site 349101005088 TPP binding site [chemical binding]; other site 349101005089 substrate binding site [chemical binding]; other site 349101005090 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 349101005091 TPP-binding site [chemical binding]; other site 349101005092 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 349101005093 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349101005094 Helix-turn-helix domains; Region: HTH; cl00088 349101005095 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 349101005096 putative effector binding pocket; other site 349101005097 dimerization interface [polypeptide binding]; other site 349101005098 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 349101005099 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 349101005100 dimerization interface [polypeptide binding]; other site 349101005101 ATP binding site [chemical binding]; other site 349101005102 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 349101005103 dimerization interface [polypeptide binding]; other site 349101005104 ATP binding site [chemical binding]; other site 349101005105 BolA-like protein; Region: BolA; cl00386 349101005106 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 349101005107 putative GSH binding site [chemical binding]; other site 349101005108 catalytic residues [active] 349101005109 Cell division protein ZapA; Region: ZapA; cl01146 349101005110 transketolase; Reviewed; Region: PRK05899 349101005111 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 349101005112 TPP-binding site [chemical binding]; other site 349101005113 dimer interface [polypeptide binding]; other site 349101005114 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 349101005115 PYR/PP interface [polypeptide binding]; other site 349101005116 dimer interface [polypeptide binding]; other site 349101005117 TPP binding site [chemical binding]; other site 349101005118 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349101005119 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 349101005120 Protein of unknown function (DUF808); Region: DUF808; cl01002 349101005121 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101005122 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 349101005123 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 349101005124 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 349101005125 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 349101005126 active site 349101005127 (T/H)XGH motif; other site 349101005128 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_10; cd04623 349101005129 FOG: CBS domain [General function prediction only]; Region: COG0517 349101005130 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349101005131 Helix-turn-helix domains; Region: HTH; cl00088 349101005132 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101005133 dimerization interface [polypeptide binding]; other site 349101005134 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 349101005135 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349101005136 tetrameric interface [polypeptide binding]; other site 349101005137 NAD binding site [chemical binding]; other site 349101005138 catalytic residues [active] 349101005139 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 349101005140 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 349101005141 ligand binding site [chemical binding]; other site 349101005142 flexible hinge region; other site 349101005143 Helix-turn-helix domains; Region: HTH; cl00088 349101005144 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 349101005145 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 349101005146 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 349101005147 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 349101005148 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 349101005149 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 349101005150 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 349101005151 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349101005152 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349101005153 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 349101005154 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 349101005155 putative substrate translocation pore; other site 349101005156 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 349101005157 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 349101005158 Protein of unknown function; Region: DUF3971; pfam13116 349101005159 AsmA-like C-terminal region; Region: AsmA_2; cl15864 349101005160 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 349101005161 catalytic triad [active] 349101005162 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 349101005163 Peptidase family M23; Region: Peptidase_M23; pfam01551 349101005164 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 349101005165 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 349101005166 peptide chain release factor 2; Validated; Region: prfB; PRK00578 349101005167 RF-1 domain; Region: RF-1; cl02875 349101005168 RF-1 domain; Region: RF-1; cl02875 349101005169 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 349101005170 Transglycosylase; Region: Transgly; cl07896 349101005171 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 349101005172 AMIN domain; Region: AMIN; pfam11741 349101005173 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 349101005174 active site 349101005175 metal binding site [ion binding]; metal-binding site 349101005176 aspartate aminotransferase; Provisional; Region: PRK05764 349101005177 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 349101005178 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101005179 homodimer interface [polypeptide binding]; other site 349101005180 catalytic residue [active] 349101005181 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 349101005182 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 349101005183 catalytic residues [active] 349101005184 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 349101005185 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 349101005186 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 349101005187 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 349101005188 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 349101005189 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 349101005190 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 349101005191 substrate-cofactor binding pocket; other site 349101005192 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101005193 catalytic residue [active] 349101005194 hypothetical protein; Validated; Region: PRK09104 349101005195 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 349101005196 metal binding site [ion binding]; metal-binding site 349101005197 putative dimer interface [polypeptide binding]; other site 349101005198 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 349101005199 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349101005200 Coenzyme A binding pocket [chemical binding]; other site 349101005201 Pirin-related protein [General function prediction only]; Region: COG1741 349101005202 Cupin domain; Region: Cupin_2; cl09118 349101005203 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 349101005204 GMP synthase; Reviewed; Region: guaA; PRK00074 349101005205 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 349101005206 AMP/PPi binding site [chemical binding]; other site 349101005207 candidate oxyanion hole; other site 349101005208 catalytic triad [active] 349101005209 potential glutamine specificity residues [chemical binding]; other site 349101005210 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 349101005211 ATP Binding subdomain [chemical binding]; other site 349101005212 Ligand Binding sites [chemical binding]; other site 349101005213 Dimerization subdomain; other site 349101005214 EamA-like transporter family; Region: EamA; cl01037 349101005215 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 349101005216 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; cl01155 349101005217 EamA-like transporter family; Region: EamA; cl01037 349101005218 EamA-like transporter family; Region: EamA; cl01037 349101005219 Homoserine O-succinyltransferase; Region: HTS; pfam04204 349101005220 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 349101005221 proposed active site lysine [active] 349101005222 conserved cys residue [active] 349101005223 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349101005224 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 349101005225 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349101005226 Helix-turn-helix domains; Region: HTH; cl00088 349101005227 WHG domain; Region: WHG; pfam13305 349101005228 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349101005229 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101005230 Walker A/P-loop; other site 349101005231 ATP binding site [chemical binding]; other site 349101005232 Q-loop/lid; other site 349101005233 ABC transporter signature motif; other site 349101005234 Walker B; other site 349101005235 D-loop; other site 349101005236 H-loop/switch region; other site 349101005237 TOBE domain; Region: TOBE_2; cl01440 349101005238 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 349101005239 dimer interface [polypeptide binding]; other site 349101005240 conserved gate region; other site 349101005241 putative PBP binding loops; other site 349101005242 ABC-ATPase subunit interface; other site 349101005243 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 349101005244 dimer interface [polypeptide binding]; other site 349101005245 conserved gate region; other site 349101005246 putative PBP binding loops; other site 349101005247 ABC-ATPase subunit interface; other site 349101005248 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 349101005249 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101005250 DNA-binding site [nucleotide binding]; DNA binding site 349101005251 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 349101005252 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101005253 homodimer interface [polypeptide binding]; other site 349101005254 catalytic residue [active] 349101005255 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 349101005256 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 349101005257 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 349101005258 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 349101005259 23S rRNA interface [nucleotide binding]; other site 349101005260 L3 interface [polypeptide binding]; other site 349101005261 Cupin domain; Region: Cupin_2; cl09118 349101005262 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 349101005263 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 349101005264 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 349101005265 extended (e) SDRs; Region: SDR_e; cd08946 349101005266 NAD(P) binding site [chemical binding]; other site 349101005267 active site 349101005268 substrate binding site [chemical binding]; other site 349101005269 short chain dehydrogenase; Provisional; Region: PRK07109 349101005270 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101005271 NAD(P) binding site [chemical binding]; other site 349101005272 active site 349101005273 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 349101005274 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 349101005275 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 349101005276 PAS fold; Region: PAS_4; pfam08448 349101005277 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 349101005278 putative active site [active] 349101005279 heme pocket [chemical binding]; other site 349101005280 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 349101005281 putative active site [active] 349101005282 PAS fold; Region: PAS_3; pfam08447 349101005283 heme pocket [chemical binding]; other site 349101005284 PAS domain S-box; Region: sensory_box; TIGR00229 349101005285 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 349101005286 putative active site [active] 349101005287 heme pocket [chemical binding]; other site 349101005288 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349101005289 metal binding site [ion binding]; metal-binding site 349101005290 active site 349101005291 I-site; other site 349101005292 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 349101005293 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 349101005294 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349101005295 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 349101005296 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 349101005297 DNA binding residues [nucleotide binding] 349101005298 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 349101005299 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101005300 Walker A motif; other site 349101005301 ATP binding site [chemical binding]; other site 349101005302 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 349101005303 FHIPEP family; Region: FHIPEP; pfam00771 349101005304 LPP20 lipoprotein; Region: LPP20; cl15824 349101005305 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 349101005306 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 349101005307 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 349101005308 Sel1 repeat; Region: Sel1; cl02723 349101005309 Flagellar protein FliS; Region: FliS; cl00654 349101005310 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 349101005311 putative binding surface; other site 349101005312 active site 349101005313 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 349101005314 Response regulator receiver domain; Region: Response_reg; pfam00072 349101005315 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 349101005316 active site 349101005317 phosphorylation site [posttranslational modification] 349101005318 intermolecular recognition site; other site 349101005319 dimerization interface [polypeptide binding]; other site 349101005320 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349101005321 dimer interface [polypeptide binding]; other site 349101005322 putative CheW interface [polypeptide binding]; other site 349101005323 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 349101005324 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101005325 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 349101005326 Magnesium ion binding site [ion binding]; other site 349101005327 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 349101005328 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 349101005329 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 349101005330 active site 349101005331 phosphorylation site [posttranslational modification] 349101005332 intermolecular recognition site; other site 349101005333 dimerization interface [polypeptide binding]; other site 349101005334 CheB methylesterase; Region: CheB_methylest; pfam01339 349101005335 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 349101005336 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 349101005337 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; cl16911 349101005338 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 349101005339 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 349101005340 ATP binding site [chemical binding]; other site 349101005341 Mg2+ binding site [ion binding]; other site 349101005342 G-X-G motif; other site 349101005343 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 349101005344 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 349101005345 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 349101005346 Walker A motif; other site 349101005347 ATP binding site [chemical binding]; other site 349101005348 Walker B motif; other site 349101005349 arginine finger; other site 349101005350 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 349101005351 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 349101005352 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 349101005353 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 349101005354 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 349101005355 FliG C-terminal domain; Region: FliG_C; pfam01706 349101005356 Flagellar assembly protein FliH; Region: FliH; pfam02108 349101005357 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 349101005358 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101005359 Walker A motif; other site 349101005360 ATP binding site [chemical binding]; other site 349101005361 Walker B motif; other site 349101005362 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 349101005363 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 349101005364 flagellar motor switch protein FliM; Region: fliM_switch; TIGR01397 349101005365 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 349101005366 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 349101005367 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 349101005368 FliP family; Region: FliP; cl00593 349101005369 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 349101005370 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 349101005371 flagellar biosynthetic protein FlhB; Region: flhB; TIGR00328 349101005372 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 349101005373 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 349101005374 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 349101005375 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 349101005376 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 349101005377 flagellin; Provisional; Region: PRK12806 349101005378 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 349101005379 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 349101005380 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 349101005381 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 349101005382 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 349101005383 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 349101005384 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 349101005385 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 349101005386 Walker A motif; other site 349101005387 ATP binding site [chemical binding]; other site 349101005388 Walker B motif; other site 349101005389 arginine finger; other site 349101005390 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 349101005391 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 349101005392 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 349101005393 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 349101005394 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 349101005395 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 349101005396 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 349101005397 Rod binding protein; Region: Rod-binding; cl01626 349101005398 Flagellar P-ring protein; Region: FlgI; pfam02119 349101005399 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 349101005400 Flagellar L-ring protein; Region: FlgH; cl00905 349101005401 flagellar basal-body rod protein FlgG, Gram-negative bacteria; Region: flgG_G_neg; TIGR02488 349101005402 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 349101005403 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 349101005404 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 349101005405 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 349101005406 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 349101005407 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 349101005408 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 349101005409 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 349101005410 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 349101005411 FlgD Ig-like domain; Region: FlgD_ig; cl15790 349101005412 flagellar basal-body rod protein FlgC; Region: FlgC; TIGR01395 349101005413 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 349101005414 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 349101005415 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 349101005416 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 349101005417 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 349101005418 putative active site [active] 349101005419 heme pocket [chemical binding]; other site 349101005420 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 349101005421 dimer interface [polypeptide binding]; other site 349101005422 phosphorylation site [posttranslational modification] 349101005423 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 349101005424 ATP binding site [chemical binding]; other site 349101005425 Mg2+ binding site [ion binding]; other site 349101005426 G-X-G motif; other site 349101005427 Response regulator receiver domain; Region: Response_reg; pfam00072 349101005428 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 349101005429 active site 349101005430 phosphorylation site [posttranslational modification] 349101005431 intermolecular recognition site; other site 349101005432 dimerization interface [polypeptide binding]; other site 349101005433 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 349101005434 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349101005435 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 349101005436 active site 349101005437 phosphorylation site [posttranslational modification] 349101005438 intermolecular recognition site; other site 349101005439 dimerization interface [polypeptide binding]; other site 349101005440 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 349101005441 DNA binding residues [nucleotide binding] 349101005442 dimerization interface [polypeptide binding]; other site 349101005443 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 349101005444 dimerization interface [polypeptide binding]; other site 349101005445 metal binding site [ion binding]; metal-binding site 349101005446 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 349101005447 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 349101005448 active site 349101005449 motif I; other site 349101005450 motif II; other site 349101005451 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 349101005452 Helix-turn-helix domains; Region: HTH; cl00088 349101005453 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 349101005454 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101005455 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 349101005456 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 349101005457 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 349101005458 putative PBP binding loops; other site 349101005459 ABC-ATPase subunit interface; other site 349101005460 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349101005461 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 349101005462 dimer interface [polypeptide binding]; other site 349101005463 conserved gate region; other site 349101005464 putative PBP binding loops; other site 349101005465 ABC-ATPase subunit interface; other site 349101005466 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 349101005467 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 349101005468 Walker A/P-loop; other site 349101005469 ATP binding site [chemical binding]; other site 349101005470 Q-loop/lid; other site 349101005471 ABC transporter signature motif; other site 349101005472 Walker B; other site 349101005473 D-loop; other site 349101005474 H-loop/switch region; other site 349101005475 TOBE domain; Region: TOBE_2; cl01440 349101005476 sorbitol dehydrogenase; Provisional; Region: PRK07067 349101005477 Sorbitol dehydrogenase (SDH), classical (c) SDR; Region: SDH_SDR_c; cd05363 349101005478 putative NAD(P) binding site [chemical binding]; other site 349101005479 active site 349101005480 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 349101005481 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 349101005482 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 349101005483 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 349101005484 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349101005485 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349101005486 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349101005487 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 349101005488 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 349101005489 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 349101005490 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 349101005491 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 349101005492 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 349101005493 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 349101005494 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 349101005495 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 349101005496 putative dimer interface [polypeptide binding]; other site 349101005497 [2Fe-2S] cluster binding site [ion binding]; other site 349101005498 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 349101005499 SLBB domain; Region: SLBB; pfam10531 349101005500 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 349101005501 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 349101005502 catalytic loop [active] 349101005503 iron binding site [ion binding]; other site 349101005504 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 349101005505 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 349101005506 molybdopterin cofactor binding site; other site 349101005507 NADH dehydrogenase subunit G; Validated; Region: PRK08166 349101005508 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 349101005509 NADH dehydrogenase; Region: NADHdh; cl00469 349101005510 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 349101005511 4Fe-4S binding domain; Region: Fer4; cl02805 349101005512 4Fe-4S binding domain; Region: Fer4; cl02805 349101005513 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 349101005514 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 349101005515 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 349101005516 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 349101005517 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 349101005518 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 349101005519 putative active site [active] 349101005520 catalytic site [active] 349101005521 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 349101005522 putative active site [active] 349101005523 catalytic site [active] 349101005524 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 349101005525 Cytochrome c; Region: Cytochrom_C; cl11414 349101005526 Cytochrome c; Region: Cytochrom_C; cl11414 349101005527 Cytochrome c; Region: Cytochrom_C; cl11414 349101005528 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 349101005529 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 349101005530 D-pathway; other site 349101005531 Putative ubiquinol binding site [chemical binding]; other site 349101005532 Low-spin heme (heme b) binding site [chemical binding]; other site 349101005533 Putative water exit pathway; other site 349101005534 Binuclear center (heme o3/CuB) [ion binding]; other site 349101005535 K-pathway; other site 349101005536 Putative proton exit pathway; other site 349101005537 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_2; cd02865 349101005538 Subunit I/III interface [polypeptide binding]; other site 349101005539 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 349101005540 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 349101005541 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 349101005542 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 349101005543 active site 349101005544 Autoinducer binding domain; Region: Autoind_bind; pfam03472 349101005545 Autoinducer binding domain; Region: Autoind_bind; pfam03472 349101005546 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 349101005547 DNA binding residues [nucleotide binding] 349101005548 transcriptional regulator TraR; Provisional; Region: PRK13870 349101005549 Autoinducer binding domain; Region: Autoind_bind; pfam03472 349101005550 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 349101005551 DNA binding residues [nucleotide binding] 349101005552 dimerization interface [polypeptide binding]; other site 349101005553 Autoinducer synthetase; Region: Autoind_synth; pfam00765 349101005554 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 349101005555 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 349101005556 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 349101005557 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 349101005558 active site 349101005559 OpgC protein; Region: OpgC_C; cl00792 349101005560 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 349101005561 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 349101005562 Walker A/P-loop; other site 349101005563 ATP binding site [chemical binding]; other site 349101005564 Q-loop/lid; other site 349101005565 ABC transporter signature motif; other site 349101005566 Walker B; other site 349101005567 D-loop; other site 349101005568 H-loop/switch region; other site 349101005569 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349101005570 NIL domain; Region: NIL; cl09633 349101005571 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 349101005572 dimer interface [polypeptide binding]; other site 349101005573 conserved gate region; other site 349101005574 ABC-ATPase subunit interface; other site 349101005575 NMT1-like family; Region: NMT1_2; cl15260 349101005576 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 349101005577 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349101005578 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 349101005579 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 349101005580 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 349101005581 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 349101005582 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 349101005583 trigger factor; Provisional; Region: tig; PRK01490 349101005584 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 349101005585 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 349101005586 Hint domain; Region: Hint_2; pfam13403 349101005587 Nitrogen regulatory protein P-II; Region: P-II; cl00412 349101005588 Nitrogen regulatory protein P-II; Region: P-II; smart00938 349101005589 glutamine synthetase; Provisional; Region: glnA; PRK09469 349101005590 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 349101005591 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 349101005592 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 349101005593 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 349101005594 active site 349101005595 phosphorylation site [posttranslational modification] 349101005596 intermolecular recognition site; other site 349101005597 dimerization interface [polypeptide binding]; other site 349101005598 Histidine kinase; Region: HisKA_2; cl06527 349101005599 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 349101005600 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 349101005601 Response regulator receiver domain; Region: Response_reg; pfam00072 349101005602 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 349101005603 active site 349101005604 phosphorylation site [posttranslational modification] 349101005605 intermolecular recognition site; other site 349101005606 dimerization interface [polypeptide binding]; other site 349101005607 CHASE3 domain; Region: CHASE3; cl05000 349101005608 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 349101005609 dimer interface [polypeptide binding]; other site 349101005610 phosphorylation site [posttranslational modification] 349101005611 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 349101005612 ATP binding site [chemical binding]; other site 349101005613 Mg2+ binding site [ion binding]; other site 349101005614 G-X-G motif; other site 349101005615 MoxR-like ATPases [General function prediction only]; Region: COG0714 349101005616 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101005617 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 349101005618 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 349101005619 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101005620 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 349101005621 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 349101005622 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 349101005623 substrate binding site [chemical binding]; other site 349101005624 oxyanion hole (OAH) forming residues; other site 349101005625 trimer interface [polypeptide binding]; other site 349101005626 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; cl15762 349101005627 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 349101005628 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349101005629 active site 349101005630 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 349101005631 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 349101005632 active site 349101005633 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 349101005634 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 349101005635 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 349101005636 NAD binding site [chemical binding]; other site 349101005637 homodimer interface [polypeptide binding]; other site 349101005638 active site 349101005639 substrate binding site [chemical binding]; other site 349101005640 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 349101005641 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349101005642 NAD binding site [chemical binding]; other site 349101005643 putative substrate binding site 2 [chemical binding]; other site 349101005644 putative substrate binding site 1 [chemical binding]; other site 349101005645 active site 349101005646 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 349101005647 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101005648 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 349101005649 dimer interface [polypeptide binding]; other site 349101005650 conserved gate region; other site 349101005651 putative PBP binding loops; other site 349101005652 ABC-ATPase subunit interface; other site 349101005653 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 349101005654 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 349101005655 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 349101005656 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 349101005657 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 349101005658 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 349101005659 Na binding site [ion binding]; other site 349101005660 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 349101005661 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 349101005662 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 349101005663 dimer interface [polypeptide binding]; other site 349101005664 phosphorylation site [posttranslational modification] 349101005665 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 349101005666 ATP binding site [chemical binding]; other site 349101005667 Mg2+ binding site [ion binding]; other site 349101005668 G-X-G motif; other site 349101005669 Response regulator receiver domain; Region: Response_reg; pfam00072 349101005670 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 349101005671 active site 349101005672 phosphorylation site [posttranslational modification] 349101005673 intermolecular recognition site; other site 349101005674 dimerization interface [polypeptide binding]; other site 349101005675 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 349101005676 non-specific DNA binding site [nucleotide binding]; other site 349101005677 salt bridge; other site 349101005678 sequence-specific DNA binding site [nucleotide binding]; other site 349101005679 sensory histidine kinase CreC; Provisional; Region: PRK11100 349101005680 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 349101005681 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 349101005682 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 349101005683 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 349101005684 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 349101005685 NAD binding site [chemical binding]; other site 349101005686 homotetramer interface [polypeptide binding]; other site 349101005687 homodimer interface [polypeptide binding]; other site 349101005688 active site 349101005689 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 349101005690 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101005691 Dehydratase family; Region: ILVD_EDD; cl00340 349101005692 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 349101005693 FAD binding domain; Region: FAD_binding_4; pfam01565 349101005694 NMT1/THI5 like; Region: NMT1; pfam09084 349101005695 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; cl15306 349101005696 substrate binding pocket [chemical binding]; other site 349101005697 membrane-bound complex binding site; other site 349101005698 hinge residues; other site 349101005699 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 349101005700 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349101005701 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349101005702 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 349101005703 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 349101005704 Walker A/P-loop; other site 349101005705 ATP binding site [chemical binding]; other site 349101005706 Q-loop/lid; other site 349101005707 ABC transporter signature motif; other site 349101005708 Walker B; other site 349101005709 D-loop; other site 349101005710 H-loop/switch region; other site 349101005711 phenylhydantoinase; Validated; Region: PRK08323 349101005712 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 349101005713 tetramer interface [polypeptide binding]; other site 349101005714 active site 349101005715 allantoate amidohydrolase; Reviewed; Region: PRK12893 349101005716 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 349101005717 active site 349101005718 metal binding site [ion binding]; metal-binding site 349101005719 dimer interface [polypeptide binding]; other site 349101005720 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 349101005721 Helix-turn-helix domains; Region: HTH; cl00088 349101005722 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 349101005723 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349101005724 Helix-turn-helix domains; Region: HTH; cl00088 349101005725 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 349101005726 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 349101005727 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 349101005728 homodimer interface [polypeptide binding]; other site 349101005729 active site 349101005730 FMN binding site [chemical binding]; other site 349101005731 substrate binding site [chemical binding]; other site 349101005732 4Fe-4S binding domain; Region: Fer4; cl02805 349101005733 4Fe-4S binding domain; Region: Fer4; cl02805 349101005734 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 349101005735 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 349101005736 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 349101005737 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101005738 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349101005739 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 349101005740 carboxyltransferase (CT) interaction site; other site 349101005741 biotinylation site [posttranslational modification]; other site 349101005742 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 349101005743 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349101005744 ATP-grasp domain; Region: ATP-grasp_4; cl03087 349101005745 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 349101005746 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349101005747 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 349101005748 mce related protein; Region: MCE; pfam02470 349101005749 NADH ubiquinone oxidoreductase subunit NDUFA12; Region: NDUFA12; cl01534 349101005750 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 349101005751 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 349101005752 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 349101005753 Walker A motif; other site 349101005754 ATP binding site [chemical binding]; other site 349101005755 Walker B motif; other site 349101005756 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 349101005757 Clp protease; Region: CLP_protease; pfam00574 349101005758 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 349101005759 oligomer interface [polypeptide binding]; other site 349101005760 active site residues [active] 349101005761 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 349101005762 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101005763 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 349101005764 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 349101005765 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349101005766 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 349101005767 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101005768 Walker A/P-loop; other site 349101005769 ATP binding site [chemical binding]; other site 349101005770 Q-loop/lid; other site 349101005771 ABC transporter signature motif; other site 349101005772 Walker B; other site 349101005773 D-loop; other site 349101005774 H-loop/switch region; other site 349101005775 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 349101005776 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 349101005777 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 349101005778 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 349101005779 ATP binding site [chemical binding]; other site 349101005780 Mg2+ binding site [ion binding]; other site 349101005781 G-X-G motif; other site 349101005782 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 349101005783 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349101005784 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349101005785 dimer interface [polypeptide binding]; other site 349101005786 putative CheW interface [polypeptide binding]; other site 349101005787 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 349101005788 Predicted transcriptional regulator [Transcription]; Region: COG2378 349101005789 WYL domain; Region: WYL; cl14852 349101005790 Protein of unknown function DUF262; Region: DUF262; cl14890 349101005791 Protein of unknown function DUF262; Region: DUF262; cl14890 349101005792 Protein of unknown function DUF262; Region: DUF262; cl14890 349101005793 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 349101005794 ATP binding site [chemical binding]; other site 349101005795 putative Mg++ binding site [ion binding]; other site 349101005796 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 349101005797 nucleotide binding region [chemical binding]; other site 349101005798 ATP-binding site [chemical binding]; other site 349101005799 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 349101005800 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 349101005801 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 349101005802 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; cl16911 349101005803 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 349101005804 Protein of unknown function (DUF499); Region: DUF499; pfam04465 349101005805 Peptidase M15; Region: Peptidase_M15_3; cl01194 349101005806 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 349101005807 active site 349101005808 metal binding site [ion binding]; metal-binding site 349101005809 interdomain interaction site; other site 349101005810 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_3; cd10035 349101005811 putative uracil binding site [chemical binding]; other site 349101005812 putative active site [active] 349101005813 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 349101005814 HsdM N-terminal domain; Region: HsdM_N; pfam12161 349101005815 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; cl16911 349101005816 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 349101005817 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 349101005818 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 349101005819 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 349101005820 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 349101005821 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 349101005822 Integrase core domain; Region: rve_3; cl15866 349101005823 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349101005824 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349101005825 ComEC family competence protein; Provisional; Region: PRK11539 349101005826 Helix-turn-helix domains; Region: HTH; cl00088 349101005827 Winged helix-turn helix; Region: HTH_29; pfam13551 349101005828 Helix-turn-helix domains; Region: HTH; cl00088 349101005829 Integrase core domain; Region: rve; cl01316 349101005830 Integrase core domain; Region: rve_3; cl15866 349101005831 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 349101005832 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 349101005833 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 349101005834 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 349101005835 active site 349101005836 Phospholipid methyltransferase; Region: PEMT; cl00763 349101005837 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 349101005838 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 349101005839 putative substrate translocation pore; other site 349101005840 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 349101005841 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 349101005842 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 349101005843 active site 349101005844 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 349101005845 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 349101005846 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 349101005847 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349101005848 ligand binding site [chemical binding]; other site 349101005849 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 349101005850 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 349101005851 heme-binding site [chemical binding]; other site 349101005852 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349101005853 dimer interface [polypeptide binding]; other site 349101005854 putative CheW interface [polypeptide binding]; other site 349101005855 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 349101005856 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 349101005857 FeS/SAM binding site; other site 349101005858 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 349101005859 FAD dependent oxidoreductase; Region: DAO; pfam01266 349101005860 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101005861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101005862 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 349101005863 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 349101005864 metal binding site [ion binding]; metal-binding site 349101005865 putative dimer interface [polypeptide binding]; other site 349101005866 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 349101005867 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 349101005868 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 349101005869 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 349101005870 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 349101005871 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101005872 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 349101005873 Phospholipid methyltransferase; Region: PEMT; cl00763 349101005874 kynureninase; Region: kynureninase; TIGR01814 349101005875 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 349101005876 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349101005877 catalytic residue [active] 349101005878 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 349101005879 Peptidase C26; Region: Peptidase_C26; pfam07722 349101005880 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 349101005881 catalytic triad [active] 349101005882 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 349101005883 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 349101005884 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349101005885 catalytic residue [active] 349101005886 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 349101005887 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 349101005888 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101005889 Walker A/P-loop; other site 349101005890 ATP binding site [chemical binding]; other site 349101005891 Q-loop/lid; other site 349101005892 ABC transporter signature motif; other site 349101005893 Walker B; other site 349101005894 D-loop; other site 349101005895 H-loop/switch region; other site 349101005896 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 349101005897 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 349101005898 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 349101005899 elongation factor P; Validated; Region: PRK00529 349101005900 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 349101005901 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 349101005902 RNA binding site [nucleotide binding]; other site 349101005903 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 349101005904 RNA binding site [nucleotide binding]; other site 349101005905 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 349101005906 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 349101005907 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; cl16911 349101005908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101005909 FAD dependent oxidoreductase; Region: DAO; pfam01266 349101005910 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12571 349101005911 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 349101005912 TPP-binding site; other site 349101005913 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 349101005914 PYR/PP interface [polypeptide binding]; other site 349101005915 dimer interface [polypeptide binding]; other site 349101005916 TPP binding site [chemical binding]; other site 349101005917 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349101005918 Intrinsic membrane protein PufX; Region: RhodobacterPufX; pfam11511 349101005919 Subunit M of bacterial photosynthetic reaction center; Region: Photo-RC_M; cd09291 349101005920 subunit H interface; other site 349101005921 subunit L interface; other site 349101005922 bacteriopheophytin binding site; other site 349101005923 carotenoid binding site; other site 349101005924 bacteriochlorophyll binding site; other site 349101005925 cytochrome C interface; other site 349101005926 quinone binding site; other site 349101005927 Fe binding site [ion binding]; other site 349101005928 Subunit L of bacterial photosynthetic reaction center; Region: Photo-RC_L; cd09290 349101005929 subunit M interface; other site 349101005930 subunit H interface; other site 349101005931 quinone binding site; other site 349101005932 bacteriopheophytin binding site; other site 349101005933 bacteriochlorophyll binding site; other site 349101005934 cytochrome C subunit interface; other site 349101005935 Fe binding site [ion binding]; other site 349101005936 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 349101005937 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 349101005938 PufQ cytochrome subunit; Region: PufQ; pfam05398 349101005939 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 349101005940 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 349101005941 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 349101005942 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 349101005943 Chlorophyllide reductase converts chlorophylls into bacteriochlorophylls by reducing the chlorin B-ring. This family contains the X subunit of this three-subunit enzyme. Sequence and structure similarity between bchX, protochlorophyllide reductase L...; Region: BchX; cd02033 349101005944 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 349101005945 P-loop; other site 349101005946 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 349101005947 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 349101005948 putative NAD(P) binding site [chemical binding]; other site 349101005949 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 349101005950 O-methyltransferase; Region: Methyltransf_2; pfam00891 349101005951 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 349101005952 substrate binding pocket [chemical binding]; other site 349101005953 chain length determination region; other site 349101005954 substrate-Mg2+ binding site; other site 349101005955 catalytic residues [active] 349101005956 aspartate-rich region 1; other site 349101005957 active site lid residues [active] 349101005958 aspartate-rich region 2; other site 349101005959 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 349101005960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101005961 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 349101005962 TspO/MBR family; Region: TspO_MBR; cl01379 349101005963 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 349101005964 active site lid residues [active] 349101005965 substrate binding pocket [chemical binding]; other site 349101005966 catalytic residues [active] 349101005967 substrate-Mg2+ binding site; other site 349101005968 aspartate-rich region 1; other site 349101005969 aspartate-rich region 2; other site 349101005970 phytoene desaturase; Region: crtI_fam; TIGR02734 349101005971 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101005972 magnesium chelatase subunit I; Provisional; Region: bchI; PRK13407 349101005973 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 349101005974 Walker A motif; other site 349101005975 ATP binding site [chemical binding]; other site 349101005976 Walker B motif; other site 349101005977 arginine finger; other site 349101005978 magnesium chelatase subunit D; Provisional; Region: bchD; PRK13406 349101005979 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 349101005980 metal ion-dependent adhesion site (MIDAS); other site 349101005981 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 349101005982 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 349101005983 active site 349101005984 metal binding site [ion binding]; metal-binding site 349101005985 nudix motif; other site 349101005986 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 349101005987 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101005988 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 349101005989 putative substrate translocation pore; other site 349101005990 PUCC protein; Region: PUCC; pfam03209 349101005991 UbiA prenyltransferase family; Region: UbiA; cl00337 349101005992 Heme NO binding; Region: HNOB; cl15268 349101005993 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 349101005994 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 349101005995 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 349101005996 FeS/SAM binding site; other site 349101005997 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 349101005998 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 349101005999 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 349101006000 Helix-turn-helix domains; Region: HTH; cl00088 349101006001 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 349101006002 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; cl06353 349101006003 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 349101006004 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 349101006005 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 349101006006 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_B; cd01981 349101006007 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 349101006008 magnesium chelatase subunit H; Provisional; Region: bchH; PRK13405 349101006009 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 349101006010 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 349101006011 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are...; Region: Bchl_like; cd02032 349101006012 P-loop; other site 349101006013 magnesium protoporphyrin O-methyltransferase; Region: BchM-ChlM; TIGR02021 349101006014 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 349101006015 S-adenosylmethionine binding site [chemical binding]; other site 349101006016 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; cl16911 349101006017 PUCC protein; Region: PUCC; pfam03209 349101006018 photosynthetic reaction center, subunit H, bacterial; Region: puhA; TIGR01150 349101006019 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cd00226 349101006020 subunit C interaction residues; other site 349101006021 subunit M interaction residues [polypeptide binding]; other site 349101006022 subunit L interaction residues [polypeptide binding]; other site 349101006023 putative proton transfer pathway, P1; other site 349101006024 putative proton transfer pathway, P2; other site 349101006025 Bacterial PH domain; Region: DUF304; cl01348 349101006026 putative photosynthetic complex assembly protein; Region: photo_alph_chp1; TIGR03054 349101006027 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 349101006028 diiron binding motif [ion binding]; other site 349101006029 Protein of unknown function (DUF3623); Region: DUF3623; cl11843 349101006030 Cytochrome c; Region: Cytochrom_C; cl11414 349101006031 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 349101006032 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 349101006033 Walker A/P-loop; other site 349101006034 ATP binding site [chemical binding]; other site 349101006035 Q-loop/lid; other site 349101006036 ABC transporter signature motif; other site 349101006037 Walker B; other site 349101006038 D-loop; other site 349101006039 H-loop/switch region; other site 349101006040 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 349101006041 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 349101006042 Walker A/P-loop; other site 349101006043 ATP binding site [chemical binding]; other site 349101006044 Q-loop/lid; other site 349101006045 ABC transporter signature motif; other site 349101006046 Walker B; other site 349101006047 D-loop; other site 349101006048 H-loop/switch region; other site 349101006049 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 349101006050 TM-ABC transporter signature motif; other site 349101006051 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 349101006052 TM-ABC transporter signature motif; other site 349101006053 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 349101006054 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 349101006055 putative ligand binding site [chemical binding]; other site 349101006056 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101006057 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 349101006058 UreF; Region: UreF; pfam01730 349101006059 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 349101006060 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 349101006061 dimer interface [polypeptide binding]; other site 349101006062 catalytic residues [active] 349101006063 urease subunit alpha; Reviewed; Region: ureC; PRK13207 349101006064 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 349101006065 subunit interactions [polypeptide binding]; other site 349101006066 active site 349101006067 flap region; other site 349101006068 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 349101006069 gamma-beta subunit interface [polypeptide binding]; other site 349101006070 alpha-beta subunit interface [polypeptide binding]; other site 349101006071 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 349101006072 alpha-gamma subunit interface [polypeptide binding]; other site 349101006073 beta-gamma subunit interface [polypeptide binding]; other site 349101006074 UreD urease accessory protein; Region: UreD; cl00530 349101006075 Phosphotransferase enzyme family; Region: APH; pfam01636 349101006076 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349101006077 active site 349101006078 ATP binding site [chemical binding]; other site 349101006079 substrate binding site [chemical binding]; other site 349101006080 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 349101006081 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 349101006082 inhibitor-cofactor binding pocket; inhibition site 349101006083 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101006084 catalytic residue [active] 349101006085 PUCC protein; Region: PUCC; pfam03209 349101006086 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349101006087 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 349101006088 DNA binding residues [nucleotide binding] 349101006089 dimerization interface [polypeptide binding]; other site 349101006090 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 349101006091 Phospholipid methyltransferase; Region: PEMT; cl00763 349101006092 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 349101006093 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 349101006094 metal ion-dependent adhesion site (MIDAS); other site 349101006095 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101006096 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 349101006097 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 349101006098 Putative water exit pathway; other site 349101006099 Binuclear center (active site) [active] 349101006100 K-pathway; other site 349101006101 Putative proton exit pathway; other site 349101006102 Cytochrome c; Region: Cytochrom_C; cl11414 349101006103 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 349101006104 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; cl01589 349101006105 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349101006106 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 349101006107 ligand binding site [chemical binding]; other site 349101006108 flexible hinge region; other site 349101006109 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 349101006110 putative switch regulator; other site 349101006111 non-specific DNA interactions [nucleotide binding]; other site 349101006112 DNA binding site [nucleotide binding] 349101006113 sequence specific DNA binding site [nucleotide binding]; other site 349101006114 putative cAMP binding site [chemical binding]; other site 349101006115 NnrS protein; Region: NnrS; cl01258 349101006116 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 349101006117 GAF domain; Region: GAF; cl15785 349101006118 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349101006119 metal binding site [ion binding]; metal-binding site 349101006120 active site 349101006121 I-site; other site 349101006122 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 349101006123 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 349101006124 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 349101006125 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 349101006126 DXD motif; other site 349101006127 PilZ domain; Region: PilZ; cl01260 349101006128 PAS fold; Region: PAS_4; pfam08448 349101006129 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349101006130 metal binding site [ion binding]; metal-binding site 349101006131 active site 349101006132 I-site; other site 349101006133 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 349101006134 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349101006135 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 349101006136 putative active site [active] 349101006137 putative metal binding site [ion binding]; other site 349101006138 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 349101006139 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 349101006140 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 349101006141 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 349101006142 S-adenosylmethionine binding site [chemical binding]; other site 349101006143 cytosine deaminase; Validated; Region: PRK07572 349101006144 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 349101006145 active site 349101006146 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 349101006147 TM-ABC transporter signature motif; other site 349101006148 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 349101006149 TM-ABC transporter signature motif; other site 349101006150 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 349101006151 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 349101006152 Walker A/P-loop; other site 349101006153 ATP binding site [chemical binding]; other site 349101006154 Q-loop/lid; other site 349101006155 ABC transporter signature motif; other site 349101006156 Walker B; other site 349101006157 D-loop; other site 349101006158 H-loop/switch region; other site 349101006159 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 349101006160 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 349101006161 putative ligand binding site [chemical binding]; other site 349101006162 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 349101006163 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101006164 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349101006165 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 349101006166 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 349101006167 dimer interface [polypeptide binding]; other site 349101006168 conserved gate region; other site 349101006169 putative PBP binding loops; other site 349101006170 ABC-ATPase subunit interface; other site 349101006171 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 349101006172 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101006173 Walker A/P-loop; other site 349101006174 ATP binding site [chemical binding]; other site 349101006175 Q-loop/lid; other site 349101006176 ABC transporter signature motif; other site 349101006177 Walker B; other site 349101006178 D-loop; other site 349101006179 H-loop/switch region; other site 349101006180 TOBE domain; Region: TOBE_2; cl01440 349101006181 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 349101006182 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 349101006183 active site 349101006184 catalytic tetrad [active] 349101006185 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 349101006186 catalytic loop [active] 349101006187 iron binding site [ion binding]; other site 349101006188 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 349101006189 generic binding surface I; other site 349101006190 generic binding surface II; other site 349101006191 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 349101006192 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 349101006193 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 349101006194 protein binding site [polypeptide binding]; other site 349101006195 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 349101006196 protein binding site [polypeptide binding]; other site 349101006197 HflC protein; Region: hflC; TIGR01932 349101006198 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 349101006199 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 349101006200 HflK protein; Region: hflK; TIGR01933 349101006201 glutathione reductase; Validated; Region: PRK06116 349101006202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101006203 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349101006204 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349101006205 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 349101006206 tetramer (dimer of dimers) interface [polypeptide binding]; other site 349101006207 active site 349101006208 dimer interface [polypeptide binding]; other site 349101006209 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 349101006210 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 349101006211 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 349101006212 EamA-like transporter family; Region: EamA; cl01037 349101006213 Thiamine pyrophosphokinase; Region: TPK; cd07995 349101006214 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 349101006215 active site 349101006216 dimerization interface [polypeptide binding]; other site 349101006217 thiamine binding site [chemical binding]; other site 349101006218 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 349101006219 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 349101006220 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 349101006221 GDP-binding site [chemical binding]; other site 349101006222 ACT binding site; other site 349101006223 IMP binding site; other site 349101006224 Preprotein translocase SecG subunit; Region: SecG; cl09123 349101006225 CTP synthetase; Validated; Region: pyrG; PRK05380 349101006226 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 349101006227 Catalytic site [active] 349101006228 active site 349101006229 UTP binding site [chemical binding]; other site 349101006230 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 349101006231 active site 349101006232 putative oxyanion hole; other site 349101006233 catalytic triad [active] 349101006234 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 349101006235 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 349101006236 putative metal binding site [ion binding]; other site 349101006237 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 349101006238 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101006239 Walker A/P-loop; other site 349101006240 ATP binding site [chemical binding]; other site 349101006241 Q-loop/lid; other site 349101006242 ABC transporter signature motif; other site 349101006243 Walker B; other site 349101006244 D-loop; other site 349101006245 H-loop/switch region; other site 349101006246 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349101006247 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 349101006248 substrate binding pocket [chemical binding]; other site 349101006249 membrane-bound complex binding site; other site 349101006250 hinge residues; other site 349101006251 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349101006252 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 349101006253 ABC-ATPase subunit interface; other site 349101006254 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 349101006255 dimer interface [polypeptide binding]; other site 349101006256 conserved gate region; other site 349101006257 putative PBP binding loops; other site 349101006258 ABC-ATPase subunit interface; other site 349101006259 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 349101006260 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 349101006261 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 349101006262 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 349101006263 catalytic triad [active] 349101006264 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 349101006265 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 349101006266 DNA binding site [nucleotide binding] 349101006267 Integrase core domain; Region: rve; cl01316 349101006268 Integrase core domain; Region: rve_3; cl15866 349101006269 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 349101006270 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 349101006271 multiple promoter invertase; Provisional; Region: mpi; PRK13413 349101006272 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 349101006273 catalytic residues [active] 349101006274 catalytic nucleophile [active] 349101006275 Presynaptic Site I dimer interface [polypeptide binding]; other site 349101006276 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 349101006277 Synaptic Flat tetramer interface [polypeptide binding]; other site 349101006278 Synaptic Site I dimer interface [polypeptide binding]; other site 349101006279 DNA binding site [nucleotide binding] 349101006280 Helix-turn-helix domains; Region: HTH; cl00088 349101006281 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 349101006282 UvsW helicase; Provisional; Region: uvsW; PHA02558 349101006283 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101006284 Superfamily II helicase [General function prediction only]; Region: COG1204 349101006285 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101006286 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 349101006287 active site 349101006288 DNA binding site [nucleotide binding] 349101006289 Int/Topo IB signature motif; other site 349101006290 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 349101006291 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 349101006292 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101006293 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 349101006294 aminotransferase; Provisional; Region: PRK06105 349101006295 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 349101006296 inhibitor-cofactor binding pocket; inhibition site 349101006297 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101006298 catalytic residue [active] 349101006299 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 349101006300 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 349101006301 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 349101006302 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 349101006303 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 349101006304 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 349101006305 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 349101006306 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349101006307 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 349101006308 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 349101006309 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 349101006310 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 349101006311 active site 349101006312 dimer interface [polypeptide binding]; other site 349101006313 motif 1; other site 349101006314 motif 2; other site 349101006315 motif 3; other site 349101006316 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 349101006317 anticodon binding site; other site 349101006318 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 349101006319 DNA-binding site [nucleotide binding]; DNA binding site 349101006320 RNA-binding motif; other site 349101006321 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349101006322 ArsC family; Region: ArsC; pfam03960 349101006323 Predicted membrane protein (DUF2177); Region: DUF2177; cl02014 349101006324 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 349101006325 folate binding site [chemical binding]; other site 349101006326 NADP+ binding site [chemical binding]; other site 349101006327 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 349101006328 dimerization interface [polypeptide binding]; other site 349101006329 active site 349101006330 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 349101006331 dimer interface [polypeptide binding]; other site 349101006332 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349101006333 active site 349101006334 metal binding site [ion binding]; metal-binding site 349101006335 glutathione binding site [chemical binding]; other site 349101006336 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 349101006337 catalytic motif [active] 349101006338 Zn binding site [ion binding]; other site 349101006339 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 349101006340 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 349101006341 ATP cone domain; Region: ATP-cone; pfam03477 349101006342 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 349101006343 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 349101006344 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 349101006345 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 349101006346 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349101006347 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 349101006348 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 349101006349 DNA binding residues [nucleotide binding] 349101006350 DNA primase; Validated; Region: dnaG; PRK05667 349101006351 CHC2 zinc finger; Region: zf-CHC2; cl15369 349101006352 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 349101006353 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 349101006354 active site 349101006355 metal binding site [ion binding]; metal-binding site 349101006356 interdomain interaction site; other site 349101006357 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 349101006358 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 349101006359 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 349101006360 NAD(P) binding site [chemical binding]; other site 349101006361 TadE-like protein; Region: TadE; cl10688 349101006362 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 349101006363 metal ion-dependent adhesion site (MIDAS); other site 349101006364 TadE-like protein; Region: TadE; cl10688 349101006365 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 349101006366 Helix-turn-helix domains; Region: HTH; cl00088 349101006367 homoserine dehydrogenase; Provisional; Region: PRK06349 349101006368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101006369 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 349101006370 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 349101006371 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 349101006372 putative active site [active] 349101006373 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 349101006374 DHH family; Region: DHH; pfam01368 349101006375 DHHA1 domain; Region: DHHA1; pfam02272 349101006376 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 349101006377 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349101006378 metal binding site [ion binding]; metal-binding site 349101006379 active site 349101006380 I-site; other site 349101006381 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 349101006382 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101006383 CHAD domain; Region: CHAD; cl10506 349101006384 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349101006385 metal binding site [ion binding]; metal-binding site 349101006386 active site 349101006387 I-site; other site 349101006388 Heme NO binding; Region: HNOB; cl15268 349101006389 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 349101006390 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 349101006391 motif II; other site 349101006392 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 349101006393 response regulator PleD; Reviewed; Region: pleD; PRK09581 349101006394 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 349101006395 active site 349101006396 phosphorylation site [posttranslational modification] 349101006397 intermolecular recognition site; other site 349101006398 dimerization interface [polypeptide binding]; other site 349101006399 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349101006400 metal binding site [ion binding]; metal-binding site 349101006401 active site 349101006402 I-site; other site 349101006403 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 349101006404 RNA polymerase sigma factor; Provisional; Region: PRK12524 349101006405 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349101006406 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 349101006407 DNA binding residues [nucleotide binding] 349101006408 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 349101006409 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 349101006410 Ca2+ binding site [ion binding]; other site 349101006411 Secreted protein acidic and rich in cysteine Ca binding region; Region: SPARC_Ca_bdg; pfam10591 349101006412 Protein of unknown function (DUF983); Region: DUF983; cl02211 349101006413 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 349101006414 nudix motif; other site 349101006415 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 349101006416 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 349101006417 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 349101006418 active site 349101006419 catalytic tetrad [active] 349101006420 Cell division inhibitor SulA; Region: SulA; cl01880 349101006421 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 349101006422 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 349101006423 active site 349101006424 HIGH motif; other site 349101006425 KMSKS motif; other site 349101006426 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 349101006427 tRNA binding surface [nucleotide binding]; other site 349101006428 anticodon binding site; other site 349101006429 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 349101006430 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 349101006431 ligand binding site [chemical binding]; other site 349101006432 flexible hinge region; other site 349101006433 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 349101006434 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 349101006435 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101006436 Walker A/P-loop; other site 349101006437 ATP binding site [chemical binding]; other site 349101006438 Q-loop/lid; other site 349101006439 ABC transporter signature motif; other site 349101006440 Walker B; other site 349101006441 D-loop; other site 349101006442 H-loop/switch region; other site 349101006443 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 349101006444 CobD/Cbib protein; Region: CobD_Cbib; cl00561 349101006445 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 349101006446 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 349101006447 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349101006448 catalytic residue [active] 349101006449 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 349101006450 FeS assembly ATPase SufC; Region: sufC; TIGR01978 349101006451 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 349101006452 Walker A/P-loop; other site 349101006453 ATP binding site [chemical binding]; other site 349101006454 Q-loop/lid; other site 349101006455 ABC transporter signature motif; other site 349101006456 Walker B; other site 349101006457 D-loop; other site 349101006458 H-loop/switch region; other site 349101006459 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 349101006460 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 349101006461 putative ABC transporter; Region: ycf24; CHL00085 349101006462 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 349101006463 Helix-turn-helix domains; Region: HTH; cl00088 349101006464 Rrf2 family protein; Region: rrf2_super; TIGR00738 349101006465 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 349101006466 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 349101006467 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 349101006468 Uncharacterized conserved protein [Function unknown]; Region: COG1284 349101006469 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 349101006470 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 349101006471 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 349101006472 G1 box; other site 349101006473 putative GEF interaction site [polypeptide binding]; other site 349101006474 GTP/Mg2+ binding site [chemical binding]; other site 349101006475 Switch I region; other site 349101006476 G2 box; other site 349101006477 G3 box; other site 349101006478 Switch II region; other site 349101006479 G4 box; other site 349101006480 G5 box; other site 349101006481 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 349101006482 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 349101006483 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 349101006484 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 349101006485 putative active site [active] 349101006486 putative dimer interface [polypeptide binding]; other site 349101006487 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 349101006488 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 349101006489 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 349101006490 motif 1; other site 349101006491 active site 349101006492 motif 2; other site 349101006493 motif 3; other site 349101006494 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 349101006495 recombinase A; Provisional; Region: recA; PRK09354 349101006496 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 349101006497 hexamer interface [polypeptide binding]; other site 349101006498 Walker A motif; other site 349101006499 ATP binding site [chemical binding]; other site 349101006500 Walker B motif; other site 349101006501 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 349101006502 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 349101006503 dimer interface [polypeptide binding]; other site 349101006504 phosphorylation site [posttranslational modification] 349101006505 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 349101006506 ATP binding site [chemical binding]; other site 349101006507 Mg2+ binding site [ion binding]; other site 349101006508 G-X-G motif; other site 349101006509 Response regulator receiver domain; Region: Response_reg; pfam00072 349101006510 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 349101006511 active site 349101006512 phosphorylation site [posttranslational modification] 349101006513 intermolecular recognition site; other site 349101006514 dimerization interface [polypeptide binding]; other site 349101006515 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; cl16911 349101006516 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 349101006517 Helix-turn-helix domains; Region: HTH; cl00088 349101006518 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 349101006519 RES domain; Region: RES; cl02411 349101006520 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 349101006521 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 349101006522 Integral membrane protein TerC family; Region: TerC; cl10468 349101006523 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 349101006524 Protein export membrane protein; Region: SecD_SecF; cl14618 349101006525 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349101006526 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349101006527 lipoyl-biotinyl attachment site [posttranslational modification]; other site 349101006528 Cation efflux family; Region: Cation_efflux; cl00316 349101006529 Peptidase family U32; Region: Peptidase_U32; cl03113 349101006530 Peptidase family U32; Region: Peptidase_U32; cl03113 349101006531 SCP-2 sterol transfer family; Region: SCP2; cl01225 349101006532 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 349101006533 Flavoprotein; Region: Flavoprotein; cl08021 349101006534 hydroxyglutarate oxidase; Provisional; Region: PRK11728 349101006535 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101006536 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 349101006537 Predicted kinase [General function prediction only]; Region: COG0645 349101006538 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 349101006539 putative catalytic site [active] 349101006540 putative metal binding site [ion binding]; other site 349101006541 putative phosphate binding site [ion binding]; other site 349101006542 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 349101006543 putative active site [active] 349101006544 catalytic site [active] 349101006545 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 349101006546 PLD-like domain; Region: PLDc_2; pfam13091 349101006547 putative active site [active] 349101006548 catalytic site [active] 349101006549 Cytochrome C'; Region: Cytochrom_C_2; cl01610 349101006550 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 349101006551 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 349101006552 intersubunit interface [polypeptide binding]; other site 349101006553 active site 349101006554 Zn2+ binding site [ion binding]; other site 349101006555 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 349101006556 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 349101006557 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 349101006558 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 349101006559 motif 1; other site 349101006560 dimer interface [polypeptide binding]; other site 349101006561 active site 349101006562 motif 2; other site 349101006563 motif 3; other site 349101006564 elongation factor P; Validated; Region: PRK00529 349101006565 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 349101006566 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 349101006567 RNA binding site [nucleotide binding]; other site 349101006568 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 349101006569 RNA binding site [nucleotide binding]; other site 349101006570 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 349101006571 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 349101006572 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 349101006573 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 349101006574 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 349101006575 NADP binding site [chemical binding]; other site 349101006576 homodimer interface [polypeptide binding]; other site 349101006577 active site 349101006578 KduI/IolB family; Region: KduI; cl01508 349101006579 Cupin domain; Region: Cupin_2; cl09118 349101006580 DctM-like transporters; Region: DctM; pfam06808 349101006581 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349101006582 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 349101006583 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 349101006584 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349101006585 Glucuronate isomerase; Region: UxaC; cl00829 349101006586 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349101006587 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101006588 DNA-binding site [nucleotide binding]; DNA binding site 349101006589 FCD domain; Region: FCD; cl11656 349101006590 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 349101006591 substrate binding site [chemical binding]; other site 349101006592 ATP binding site [chemical binding]; other site 349101006593 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 349101006594 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 349101006595 putative active site [active] 349101006596 heme pocket [chemical binding]; other site 349101006597 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 349101006598 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 349101006599 ATP binding site [chemical binding]; other site 349101006600 Mg2+ binding site [ion binding]; other site 349101006601 G-X-G motif; other site 349101006602 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 349101006603 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 349101006604 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 349101006605 Acylphosphatase; Region: Acylphosphatase; cl00551 349101006606 HypF finger; Region: zf-HYPF; pfam07503 349101006607 HypF finger; Region: zf-HYPF; pfam07503 349101006608 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 349101006609 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 349101006610 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 349101006611 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 349101006612 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 349101006613 HupE / UreJ protein; Region: HupE_UreJ; cl01011 349101006614 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 349101006615 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 349101006616 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 349101006617 putative substrate-binding site; other site 349101006618 nickel binding site [ion binding]; other site 349101006619 HupF/HypC family; Region: HupF_HypC; cl00394 349101006620 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the...; Region: HyaE; cd02965 349101006621 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 349101006622 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 349101006623 Rubredoxin; Region: Rubredoxin; pfam00301 349101006624 iron binding site [ion binding]; other site 349101006625 Protein of unknown function (DUF3457); Region: DUF3457; cl08122 349101006626 hypothetical protein; Provisional; Region: PRK06148 349101006627 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 349101006628 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 349101006629 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101006630 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 349101006631 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 349101006632 active site 349101006633 phosphorylation site [posttranslational modification] 349101006634 intermolecular recognition site; other site 349101006635 dimerization interface [polypeptide binding]; other site 349101006636 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 349101006637 Walker A motif; other site 349101006638 ATP binding site [chemical binding]; other site 349101006639 Walker B motif; other site 349101006640 arginine finger; other site 349101006641 Helix-turn-helix domains; Region: HTH; cl00088 349101006642 HupF/HypC family; Region: HupF_HypC; cl00394 349101006643 Hydrogenase formation hypA family; Region: HypD; cl12072 349101006644 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 349101006645 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 349101006646 dimerization interface [polypeptide binding]; other site 349101006647 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 349101006648 ATP binding site [chemical binding]; other site 349101006649 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 349101006650 active site residue [active] 349101006651 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349101006652 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 349101006653 active site 349101006654 phosphorylation site [posttranslational modification] 349101006655 intermolecular recognition site; other site 349101006656 PAS domain; Region: PAS_9; pfam13426 349101006657 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 349101006658 PAS fold; Region: PAS_7; pfam12860 349101006659 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 349101006660 PAS domain; Region: PAS_9; pfam13426 349101006661 putative active site [active] 349101006662 heme pocket [chemical binding]; other site 349101006663 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 349101006664 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 349101006665 ATP binding site [chemical binding]; other site 349101006666 Mg2+ binding site [ion binding]; other site 349101006667 G-X-G motif; other site 349101006668 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 349101006669 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 349101006670 active site 349101006671 phosphorylation site [posttranslational modification] 349101006672 intermolecular recognition site; other site 349101006673 dimerization interface [polypeptide binding]; other site 349101006674 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 349101006675 active site 349101006676 catalytic residues [active] 349101006677 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 349101006678 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101006679 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349101006680 NAD(P) binding site [chemical binding]; other site 349101006681 active site 349101006682 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 349101006683 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 349101006684 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 349101006685 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 349101006686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 349101006687 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 349101006688 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 349101006689 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101006690 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 349101006691 NAD(P) binding site [chemical binding]; other site 349101006692 active site 349101006693 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101006694 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 349101006695 NAD(P) binding site [chemical binding]; other site 349101006696 active site 349101006697 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 349101006698 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH9; cd08269 349101006699 putative NAD(P) binding site [chemical binding]; other site 349101006700 catalytic Zn binding site [ion binding]; other site 349101006701 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349101006702 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101006703 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 349101006704 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 349101006705 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 349101006706 putative DNA binding site [nucleotide binding]; other site 349101006707 putative homodimer interface [polypeptide binding]; other site 349101006708 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 349101006709 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 349101006710 putative DNA binding site [nucleotide binding]; other site 349101006711 putative homodimer interface [polypeptide binding]; other site 349101006712 Haemolysin-III related; Region: HlyIII; cl03831 349101006713 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 349101006714 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 349101006715 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 349101006716 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 349101006717 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 349101006718 Nitrogen fixation protein NifW; Region: NifW; cl03935 349101006719 homocitrate synthase; Region: LysS_fung_arch; TIGR02146 349101006720 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 349101006721 active site 349101006722 catalytic residues [active] 349101006723 metal binding site [ion binding]; metal-binding site 349101006724 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 349101006725 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 349101006726 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349101006727 catalytic residue [active] 349101006728 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 349101006729 active site 349101006730 NifU-like domain; Region: NifU; cl00484 349101006731 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 349101006732 NifQ; Region: NifQ; pfam04891 349101006733 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 349101006734 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 349101006735 Protein of unknown function, DUF269; Region: DUF269; cl03973 349101006736 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 349101006737 bifunctional nitrogenase molybdenum-cofactor biosynthesis protein NifE/NifN; Provisional; Region: PRK14477 349101006738 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 349101006739 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 349101006740 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 349101006741 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 349101006742 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 349101006743 MoFe protein beta/alpha subunit interactions; other site 349101006744 Beta subunit P cluster binding residues; other site 349101006745 MoFe protein beta subunit/Fe protein contacts; other site 349101006746 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 349101006747 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 349101006748 MoFe protein alpha/beta subunit interactions; other site 349101006749 Alpha subunit P cluster binding residues; other site 349101006750 FeMoco binding residues [chemical binding]; other site 349101006751 MoFe protein alpha subunit/Fe protein contacts; other site 349101006752 MoFe protein dimer/ dimer interactions; other site 349101006753 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 349101006754 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 349101006755 Nucleotide-binding sites [chemical binding]; other site 349101006756 Walker A motif; other site 349101006757 Switch I region of nucleotide binding site; other site 349101006758 Fe4S4 binding sites [ion binding]; other site 349101006759 Switch II region of nucleotide binding site; other site 349101006760 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 349101006761 NifT/FixU protein; Region: NifT; cl02351 349101006762 NifZ domain; Region: NifZ; pfam04319 349101006763 LRV protein FeS4 cluster; Region: LRV_FeS; pfam05484 349101006764 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 349101006765 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 349101006766 FeS/SAM binding site; other site 349101006767 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 349101006768 Nif-specific regulatory protein; Region: nifA; TIGR01817 349101006769 GAF domain; Region: GAF; cl15785 349101006770 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 349101006771 Walker A motif; other site 349101006772 ATP binding site [chemical binding]; other site 349101006773 Walker B motif; other site 349101006774 arginine finger; other site 349101006775 Helix-turn-helix domains; Region: HTH; cl00088 349101006776 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 349101006777 active site 349101006778 catalytic residue [active] 349101006779 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 349101006780 Sporulation related domain; Region: SPOR; cl10051 349101006781 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 349101006782 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 349101006783 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 349101006784 thymidylate kinase; Validated; Region: tmk; PRK00698 349101006785 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 349101006786 TMP-binding site; other site 349101006787 ATP-binding site [chemical binding]; other site 349101006788 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 349101006789 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 349101006790 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 349101006791 Walker A motif; other site 349101006792 ATP binding site [chemical binding]; other site 349101006793 Walker B motif; other site 349101006794 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 349101006795 Peptidase family M48; Region: Peptidase_M48; cl12018 349101006796 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 349101006797 RuvA N terminal domain; Region: RuvA_N; pfam01330 349101006798 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 349101006799 active site 349101006800 putative DNA-binding cleft [nucleotide binding]; other site 349101006801 dimer interface [polypeptide binding]; other site 349101006802 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 349101006803 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 349101006804 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; cl16911 349101006805 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 349101006806 primosome assembly protein PriA; Validated; Region: PRK05580 349101006807 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 349101006808 ATP binding site [chemical binding]; other site 349101006809 putative Mg++ binding site [ion binding]; other site 349101006810 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 349101006811 active site 349101006812 intersubunit interactions; other site 349101006813 catalytic residue [active] 349101006814 GAF domain; Region: GAF; cl15785 349101006815 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 349101006816 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 349101006817 active site 349101006818 DNA binding site [nucleotide binding] 349101006819 Int/Topo IB signature motif; other site 349101006820 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 349101006821 Ca2+ binding site [ion binding]; other site 349101006822 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 349101006823 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 349101006824 EamA-like transporter family; Region: EamA; cl01037 349101006825 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 349101006826 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 349101006827 active site 349101006828 DNA binding site [nucleotide binding] 349101006829 Protein of unknown function (DUF3253); Region: DUF3253; pfam11625 349101006830 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 349101006831 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349101006832 active site 349101006833 HIGH motif; other site 349101006834 nucleotide binding site [chemical binding]; other site 349101006835 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 349101006836 active site 349101006837 KMSKS motif; other site 349101006838 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 349101006839 tRNA binding surface [nucleotide binding]; other site 349101006840 anticodon binding site; other site 349101006841 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 349101006842 hypothetical protein; Provisional; Region: PRK05415 349101006843 Domain of unknown function (DUF697); Region: DUF697; cl12064 349101006844 YcjX-like family, DUF463; Region: DUF463; cl01193 349101006845 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 349101006846 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 349101006847 dimerization interface 3.5A [polypeptide binding]; other site 349101006848 active site 349101006849 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 349101006850 active site 349101006851 catalytic site [active] 349101006852 substrate binding site [chemical binding]; other site 349101006853 Response regulator receiver domain; Region: Response_reg; pfam00072 349101006854 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 349101006855 active site 349101006856 phosphorylation site [posttranslational modification] 349101006857 intermolecular recognition site; other site 349101006858 dimerization interface [polypeptide binding]; other site 349101006859 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 349101006860 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 349101006861 ligand binding site [chemical binding]; other site 349101006862 flexible hinge region; other site 349101006863 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 349101006864 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 349101006865 metal binding triad; other site 349101006866 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 349101006867 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 349101006868 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 349101006869 Na binding site [ion binding]; other site 349101006870 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 349101006871 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 349101006872 adenylate kinase; Reviewed; Region: adk; PRK00279 349101006873 AMP-binding site [chemical binding]; other site 349101006874 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 349101006875 acetyl-CoA synthetase; Provisional; Region: PRK00174 349101006876 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 349101006877 AMP-binding enzyme; Region: AMP-binding; cl15778 349101006878 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349101006879 putative transporter; Provisional; Region: PRK11660 349101006880 Sulfate transporter family; Region: Sulfate_transp; cl15842 349101006881 Sulfate transporter family; Region: Sulfate_transp; cl15842 349101006882 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 349101006883 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 349101006884 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 349101006885 tellurite resistance protein terB; Region: terB; cd07176 349101006886 putative metal binding site [ion binding]; other site 349101006887 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 349101006888 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349101006889 active site 349101006890 nucleotide binding site [chemical binding]; other site 349101006891 HIGH motif; other site 349101006892 KMSKS motif; other site 349101006893 OsmC-like protein; Region: OsmC; cl00767 349101006894 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 349101006895 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 349101006896 active site 349101006897 (T/H)XGH motif; other site 349101006898 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 349101006899 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 349101006900 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 349101006901 ABC transporter; Region: ABC_tran_2; pfam12848 349101006902 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 349101006903 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 349101006904 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 349101006905 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 349101006906 DNA-binding site [nucleotide binding]; DNA binding site 349101006907 RNA-binding motif; other site 349101006908 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 349101006909 Sulfatase; Region: Sulfatase; cl10460 349101006910 choline-sulfatase; Region: chol_sulfatase; TIGR03417 349101006911 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 349101006912 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 349101006913 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 349101006914 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 349101006915 active site 349101006916 Zn binding site [ion binding]; other site 349101006917 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 349101006918 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 349101006919 ATP binding site [chemical binding]; other site 349101006920 substrate interface [chemical binding]; other site 349101006921 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 349101006922 trimer interface [polypeptide binding]; other site 349101006923 active site 349101006924 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 349101006925 Flavoprotein; Region: Flavoprotein; cl08021 349101006926 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 349101006927 Protein of unknown function, DUF399; Region: DUF399; cl01139 349101006928 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 349101006929 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349101006930 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 349101006931 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 349101006932 homotrimer interface [polypeptide binding]; other site 349101006933 Walker A motif; other site 349101006934 GTP binding site [chemical binding]; other site 349101006935 Walker B motif; other site 349101006936 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 349101006937 catalytic core [active] 349101006938 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 349101006939 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 349101006940 active site 349101006941 DNA binding site [nucleotide binding] 349101006942 Int/Topo IB signature motif; other site 349101006943 ParB-like nuclease domain; Region: ParBc; cl02129 349101006944 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 349101006945 Helix-turn-helix domains; Region: HTH; cl00088 349101006946 Winged helix-turn helix; Region: HTH_29; pfam13551 349101006947 Helix-turn-helix domains; Region: HTH; cl00088 349101006948 Integrase core domain; Region: rve; cl01316 349101006949 Integrase core domain; Region: rve_3; cl15866 349101006950 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349101006951 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 349101006952 putative NAD(P) binding site [chemical binding]; other site 349101006953 maturation of RBCL 1; Provisional; Region: PLN03218 349101006954 maturation of RBCL 1; Provisional; Region: PLN03218 349101006955 maturation of RBCL 1; Provisional; Region: PLN03218 349101006956 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 349101006957 active site 349101006958 DNA binding site [nucleotide binding] 349101006959 Int/Topo IB signature motif; other site 349101006960 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 349101006961 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 349101006962 non-specific DNA binding site [nucleotide binding]; other site 349101006963 salt bridge; other site 349101006964 sequence-specific DNA binding site [nucleotide binding]; other site 349101006965 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 349101006966 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 349101006967 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349101006968 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 349101006969 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 349101006970 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 349101006971 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 349101006972 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 349101006973 dimerization interface [polypeptide binding]; other site 349101006974 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 349101006975 dimer interface [polypeptide binding]; other site 349101006976 phosphorylation site [posttranslational modification] 349101006977 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 349101006978 ATP binding site [chemical binding]; other site 349101006979 Mg2+ binding site [ion binding]; other site 349101006980 G-X-G motif; other site 349101006981 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; cl09944 349101006982 active site 349101006983 dimerization interface [polypeptide binding]; other site 349101006984 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 349101006985 DNA binding site [nucleotide binding] 349101006986 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 349101006987 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101006988 Domain of unknown function (DUF329); Region: DUF329; cl01144 349101006989 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 349101006990 RNA binding site [nucleotide binding]; other site 349101006991 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 349101006992 Maf-like protein; Provisional; Region: PRK14361 349101006993 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 349101006994 active site 349101006995 dimer interface [polypeptide binding]; other site 349101006996 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 349101006997 rRNA binding site [nucleotide binding]; other site 349101006998 predicted 30S ribosome binding site; other site 349101006999 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 349101007000 Predicted amidohydrolase [General function prediction only]; Region: COG0388 349101007001 putative active site [active] 349101007002 catalytic triad [active] 349101007003 putative dimer interface [polypeptide binding]; other site 349101007004 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 349101007005 Low molecular weight phosphatase family; Region: LMWPc; cd00115 349101007006 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 349101007007 active site 349101007008 Uncharacterized protein family (UPF0262); Region: UPF0262; cl11489 349101007009 histidinol dehydrogenase; Region: hisD; TIGR00069 349101007010 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 349101007011 NAD binding site [chemical binding]; other site 349101007012 dimerization interface [polypeptide binding]; other site 349101007013 product binding site; other site 349101007014 substrate binding site [chemical binding]; other site 349101007015 zinc binding site [ion binding]; other site 349101007016 catalytic residues [active] 349101007017 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 349101007018 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 349101007019 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 349101007020 hinge; other site 349101007021 active site 349101007022 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349101007023 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 349101007024 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349101007025 Cupin domain; Region: Cupin_2; cl09118 349101007026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101007027 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 349101007028 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 349101007029 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 349101007030 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 349101007031 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 349101007032 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 349101007033 non-specific DNA binding site [nucleotide binding]; other site 349101007034 salt bridge; other site 349101007035 sequence-specific DNA binding site [nucleotide binding]; other site 349101007036 Cupin domain; Region: Cupin_2; cl09118 349101007037 EamA-like transporter family; Region: EamA; cl01037 349101007038 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 349101007039 EamA-like transporter family; Region: EamA; cl01037 349101007040 MASE1; Region: MASE1; pfam05231 349101007041 MASE1; Region: MASE1; pfam05231 349101007042 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 349101007043 Histidine kinase; Region: HisKA_2; cl06527 349101007044 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 349101007045 ATP binding site [chemical binding]; other site 349101007046 Mg2+ binding site [ion binding]; other site 349101007047 G-X-G motif; other site 349101007048 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349101007049 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101007050 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 349101007051 Walker A/P-loop; other site 349101007052 ATP binding site [chemical binding]; other site 349101007053 Q-loop/lid; other site 349101007054 ABC transporter signature motif; other site 349101007055 Walker B; other site 349101007056 D-loop; other site 349101007057 H-loop/switch region; other site 349101007058 NMT1/THI5 like; Region: NMT1; pfam09084 349101007059 NMT1-like family; Region: NMT1_2; cl15260 349101007060 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 349101007061 dimer interface [polypeptide binding]; other site 349101007062 substrate binding site [chemical binding]; other site 349101007063 ATP binding site [chemical binding]; other site 349101007064 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 349101007065 thiamine phosphate binding site [chemical binding]; other site 349101007066 active site 349101007067 pyrophosphate binding site [ion binding]; other site 349101007068 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 349101007069 substrate binding site [chemical binding]; other site 349101007070 multimerization interface [polypeptide binding]; other site 349101007071 ATP binding site [chemical binding]; other site 349101007072 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 349101007073 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349101007074 catalytic residue [active] 349101007075 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 349101007076 active site 349101007077 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 349101007078 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 349101007079 NAD binding site [chemical binding]; other site 349101007080 homodimer interface [polypeptide binding]; other site 349101007081 active site 349101007082 substrate binding site [chemical binding]; other site 349101007083 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 349101007084 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101007085 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 349101007086 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101007087 Transcriptional regulator; Region: Transcrip_reg; cl00361 349101007088 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 349101007089 transmembrane helices; other site 349101007090 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 349101007091 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 349101007092 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 349101007093 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349101007094 putative active site [active] 349101007095 metal binding site [ion binding]; metal-binding site 349101007096 homodimer binding site [polypeptide binding]; other site 349101007097 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 349101007098 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 349101007099 ATP binding site [chemical binding]; other site 349101007100 putative Mg++ binding site [ion binding]; other site 349101007101 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 349101007102 nucleotide binding region [chemical binding]; other site 349101007103 ATP-binding site [chemical binding]; other site 349101007104 DEAD/H associated; Region: DEAD_assoc; pfam08494 349101007105 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 349101007106 active site 349101007107 metal binding site [ion binding]; metal-binding site 349101007108 LytTr DNA-binding domain; Region: LytTR; cl04498 349101007109 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 349101007110 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 349101007111 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 349101007112 homodimer interface [polypeptide binding]; other site 349101007113 NADP binding site [chemical binding]; other site 349101007114 substrate binding site [chemical binding]; other site 349101007115 Chorismate mutase type II; Region: CM_2; cl00693 349101007116 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 349101007117 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 349101007118 Potassium binding sites [ion binding]; other site 349101007119 Cesium cation binding sites [ion binding]; other site 349101007120 FtsH Extracellular; Region: FtsH_ext; pfam06480 349101007121 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 349101007122 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 349101007123 Walker A motif; other site 349101007124 ATP binding site [chemical binding]; other site 349101007125 Walker B motif; other site 349101007126 arginine finger; other site 349101007127 Peptidase family M41; Region: Peptidase_M41; pfam01434 349101007128 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 349101007129 Ligand Binding Site [chemical binding]; other site 349101007130 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 349101007131 Tetratricopeptide repeat; Region: TPR_6; pfam13174 349101007132 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349101007133 ligand binding site [chemical binding]; other site 349101007134 translocation protein TolB; Provisional; Region: tolB; PRK05137 349101007135 TolB amino-terminal domain; Region: TolB_N; cl00639 349101007136 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 349101007137 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 349101007138 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 349101007139 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 349101007140 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 349101007141 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 349101007142 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 349101007143 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 349101007144 active site 349101007145 DNA polymerase III subunit delta'; Validated; Region: PRK07471 349101007146 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101007147 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 349101007148 active site 349101007149 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349101007150 Membrane transport protein; Region: Mem_trans; cl09117 349101007151 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 349101007152 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 349101007153 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 349101007154 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 349101007155 domain interfaces; other site 349101007156 active site 349101007157 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 349101007158 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 349101007159 substrate binding site [chemical binding]; other site 349101007160 active site 349101007161 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 349101007162 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 349101007163 classical (c) SDRs; Region: SDR_c; cd05233 349101007164 NAD(P) binding site [chemical binding]; other site 349101007165 active site 349101007166 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 349101007167 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 349101007168 S-adenosylmethionine binding site [chemical binding]; other site 349101007169 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 349101007170 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 349101007171 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 349101007172 motif II; other site 349101007173 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 349101007174 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 349101007175 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 349101007176 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 349101007177 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 349101007178 metal-binding site [ion binding] 349101007179 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349101007180 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 349101007181 FixH; Region: FixH; cl01254 349101007182 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 349101007183 4Fe-4S binding domain; Region: Fer4_5; pfam12801 349101007184 4Fe-4S binding domain; Region: Fer4; cl02805 349101007185 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 349101007186 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 349101007187 Cytochrome c; Region: Cytochrom_C; cl11414 349101007188 Cytochrome c; Region: Cytochrom_C; cl11414 349101007189 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 349101007190 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 349101007191 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 349101007192 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 349101007193 Low-spin heme binding site [chemical binding]; other site 349101007194 Putative water exit pathway; other site 349101007195 Binuclear center (active site) [active] 349101007196 Putative proton exit pathway; other site 349101007197 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 349101007198 Ligand Binding Site [chemical binding]; other site 349101007199 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 349101007200 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349101007201 ligand binding site [chemical binding]; other site 349101007202 flexible hinge region; other site 349101007203 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 349101007204 non-specific DNA interactions [nucleotide binding]; other site 349101007205 DNA binding site [nucleotide binding] 349101007206 sequence specific DNA binding site [nucleotide binding]; other site 349101007207 putative cAMP binding site [chemical binding]; other site 349101007208 coproporphyrinogen III oxidase; Provisional; Region: PRK13347 349101007209 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 349101007210 FeS/SAM binding site; other site 349101007211 HemN C-terminal domain; Region: HemN_C; pfam06969 349101007212 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349101007213 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 349101007214 putative ADP-binding pocket [chemical binding]; other site 349101007215 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 349101007216 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101007217 Walker A/P-loop; other site 349101007218 ATP binding site [chemical binding]; other site 349101007219 Q-loop/lid; other site 349101007220 ABC transporter signature motif; other site 349101007221 Walker B; other site 349101007222 D-loop; other site 349101007223 H-loop/switch region; other site 349101007224 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349101007225 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101007226 Walker A/P-loop; other site 349101007227 ATP binding site [chemical binding]; other site 349101007228 Q-loop/lid; other site 349101007229 ABC transporter signature motif; other site 349101007230 Walker B; other site 349101007231 D-loop; other site 349101007232 H-loop/switch region; other site 349101007233 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 349101007234 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 349101007235 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 349101007236 dimer interface [polypeptide binding]; other site 349101007237 conserved gate region; other site 349101007238 putative PBP binding loops; other site 349101007239 ABC-ATPase subunit interface; other site 349101007240 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 349101007241 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 349101007242 dimer interface [polypeptide binding]; other site 349101007243 conserved gate region; other site 349101007244 ABC-ATPase subunit interface; other site 349101007245 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 349101007246 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_14; cd08497 349101007247 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 349101007248 Cytochrome c; Region: Cytochrom_C; cl11414 349101007249 prephenate dehydratase; Provisional; Region: PRK11899 349101007250 Prephenate dehydratase; Region: PDT; pfam00800 349101007251 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 349101007252 putative L-Phe binding site [chemical binding]; other site 349101007253 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 349101007254 hydrophobic ligand binding site; other site 349101007255 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 349101007256 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 349101007257 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 349101007258 putative NADH binding site [chemical binding]; other site 349101007259 putative active site [active] 349101007260 nudix motif; other site 349101007261 putative metal binding site [ion binding]; other site 349101007262 2',3'-cyclic-nucleotide 2'-phosphodiesterase; Region: CycNucDiestase; TIGR01390 349101007263 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 349101007264 active site 349101007265 metal binding site [ion binding]; metal-binding site 349101007266 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 349101007267 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 349101007268 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 349101007269 Walker A motif; other site 349101007270 ATP binding site [chemical binding]; other site 349101007271 Walker B motif; other site 349101007272 arginine finger; other site 349101007273 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 349101007274 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 349101007275 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 349101007276 recombination protein RecR; Reviewed; Region: recR; PRK00076 349101007277 RecR protein; Region: RecR; pfam02132 349101007278 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 349101007279 putative active site [active] 349101007280 putative metal-binding site [ion binding]; other site 349101007281 tetramer interface [polypeptide binding]; other site 349101007282 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 349101007283 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 349101007284 B1 nucleotide binding pocket [chemical binding]; other site 349101007285 B2 nucleotide binding pocket [chemical binding]; other site 349101007286 CAS motifs; other site 349101007287 active site 349101007288 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 349101007289 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 349101007290 NAD(P) binding site [chemical binding]; other site 349101007291 Helix-turn-helix domains; Region: HTH; cl00088 349101007292 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 349101007293 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 349101007294 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 349101007295 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 349101007296 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 349101007297 S-adenosylmethionine binding site [chemical binding]; other site 349101007298 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 349101007299 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 349101007300 putative DNA binding site [nucleotide binding]; other site 349101007301 putative Zn2+ binding site [ion binding]; other site 349101007302 AsnC family; Region: AsnC_trans_reg; pfam01037 349101007303 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 349101007304 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 349101007305 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101007306 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 349101007307 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 349101007308 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 349101007309 catalytic residues [active] 349101007310 argininosuccinate lyase; Provisional; Region: PRK00855 349101007311 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 349101007312 active sites [active] 349101007313 tetramer interface [polypeptide binding]; other site 349101007314 Protein of unknown function (DUF2834); Region: DUF2834; pfam11196 349101007315 diaminopimelate decarboxylase; Region: lysA; TIGR01048 349101007316 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 349101007317 active site 349101007318 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349101007319 substrate binding site [chemical binding]; other site 349101007320 catalytic residues [active] 349101007321 dimer interface [polypeptide binding]; other site 349101007322 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 349101007323 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 349101007324 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 349101007325 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101007326 Walker A/P-loop; other site 349101007327 ATP binding site [chemical binding]; other site 349101007328 Q-loop/lid; other site 349101007329 ABC transporter signature motif; other site 349101007330 Walker B; other site 349101007331 D-loop; other site 349101007332 H-loop/switch region; other site 349101007333 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 349101007334 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 349101007335 putative acyl-acceptor binding pocket; other site 349101007336 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349101007337 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional; Region: PRK14495 349101007338 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 349101007339 Walker A motif; other site 349101007340 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 349101007341 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 349101007342 GTP binding site; other site 349101007343 AzlC protein; Region: AzlC; cl00570 349101007344 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 349101007345 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 349101007346 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349101007347 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 349101007348 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 349101007349 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349101007350 active site 349101007351 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 349101007352 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 349101007353 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 349101007354 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 349101007355 putative acyltransferase; Provisional; Region: PRK05790 349101007356 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 349101007357 dimer interface [polypeptide binding]; other site 349101007358 active site 349101007359 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 349101007360 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 349101007361 NAD(P) binding site [chemical binding]; other site 349101007362 homotetramer interface [polypeptide binding]; other site 349101007363 homodimer interface [polypeptide binding]; other site 349101007364 active site 349101007365 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; cl16911 349101007366 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 349101007367 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 349101007368 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 349101007369 substrate binding pocket [chemical binding]; other site 349101007370 chain length determination region; other site 349101007371 substrate-Mg2+ binding site; other site 349101007372 catalytic residues [active] 349101007373 aspartate-rich region 1; other site 349101007374 active site lid residues [active] 349101007375 aspartate-rich region 2; other site 349101007376 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 349101007377 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349101007378 Coenzyme A binding pocket [chemical binding]; other site 349101007379 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 349101007380 Protein of unknown function, DUF481; Region: DUF481; cl01213 349101007381 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 349101007382 putative RNA binding site [nucleotide binding]; other site 349101007383 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 349101007384 homopentamer interface [polypeptide binding]; other site 349101007385 active site 349101007386 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 349101007387 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 349101007388 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 349101007389 dimerization interface [polypeptide binding]; other site 349101007390 active site 349101007391 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 349101007392 Lumazine binding domain; Region: Lum_binding; pfam00677 349101007393 Lumazine binding domain; Region: Lum_binding; pfam00677 349101007394 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 349101007395 Vi polysaccharide export protein VexA; Provisional; Region: PRK15175 349101007396 Helix-turn-helix domains; Region: HTH; cl00088 349101007397 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 349101007398 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 349101007399 non-specific DNA binding site [nucleotide binding]; other site 349101007400 salt bridge; other site 349101007401 sequence-specific DNA binding site [nucleotide binding]; other site 349101007402 aspartate aminotransferase; Provisional; Region: PRK05764 349101007403 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 349101007404 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101007405 homodimer interface [polypeptide binding]; other site 349101007406 catalytic residue [active] 349101007407 putative efflux protein, MATE family; Region: matE; TIGR00797 349101007408 MatE; Region: MatE; cl10513 349101007409 MatE; Region: MatE; cl10513 349101007410 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 349101007411 S-adenosylmethionine binding site [chemical binding]; other site 349101007412 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 349101007413 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 349101007414 DNA binding residues [nucleotide binding] 349101007415 dimerization interface [polypeptide binding]; other site 349101007416 haloalkane dehalogenase; Provisional; Region: PRK00870 349101007417 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349101007418 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 349101007419 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 349101007420 putative C-terminal domain interface [polypeptide binding]; other site 349101007421 putative GSH binding site (G-site) [chemical binding]; other site 349101007422 putative dimer interface [polypeptide binding]; other site 349101007423 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 349101007424 dimer interface [polypeptide binding]; other site 349101007425 N-terminal domain interface [polypeptide binding]; other site 349101007426 putative substrate binding pocket (H-site) [chemical binding]; other site 349101007427 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 349101007428 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 349101007429 ATP binding site [chemical binding]; other site 349101007430 Mg2+ binding site [ion binding]; other site 349101007431 G-X-G motif; other site 349101007432 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 349101007433 anchoring element; other site 349101007434 dimer interface [polypeptide binding]; other site 349101007435 ATP binding site [chemical binding]; other site 349101007436 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 349101007437 active site 349101007438 metal binding site [ion binding]; metal-binding site 349101007439 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 349101007440 mannonate dehydratase; Provisional; Region: PRK03906 349101007441 mannonate dehydratase; Region: uxuA; TIGR00695 349101007442 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 349101007443 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 349101007444 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 349101007445 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 349101007446 RNA binding site [nucleotide binding]; other site 349101007447 Cytochrome c; Region: Cytochrom_C; cl11414 349101007448 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 349101007449 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 349101007450 Walker A/P-loop; other site 349101007451 ATP binding site [chemical binding]; other site 349101007452 Q-loop/lid; other site 349101007453 ABC transporter signature motif; other site 349101007454 Walker B; other site 349101007455 D-loop; other site 349101007456 H-loop/switch region; other site 349101007457 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 349101007458 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 349101007459 FtsX-like permease family; Region: FtsX; cl15850 349101007460 prolyl-tRNA synthetase; Provisional; Region: PRK12325 349101007461 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 349101007462 dimer interface [polypeptide binding]; other site 349101007463 motif 1; other site 349101007464 active site 349101007465 motif 2; other site 349101007466 motif 3; other site 349101007467 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 349101007468 anticodon binding site; other site 349101007469 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 349101007470 Domain of unknown function DUF20; Region: UPF0118; pfam01594 349101007471 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101007472 polyphosphate kinase; Provisional; Region: PRK05443 349101007473 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 349101007474 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 349101007475 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 349101007476 putative domain interface [polypeptide binding]; other site 349101007477 putative active site [active] 349101007478 catalytic site [active] 349101007479 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 349101007480 putative domain interface [polypeptide binding]; other site 349101007481 putative active site [active] 349101007482 catalytic site [active] 349101007483 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 349101007484 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 349101007485 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 349101007486 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349101007487 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 349101007488 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 349101007489 putative metal binding site [ion binding]; other site 349101007490 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 349101007491 HSP70 interaction site [polypeptide binding]; other site 349101007492 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 349101007493 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 349101007494 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 349101007495 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101007496 homodimer interface [polypeptide binding]; other site 349101007497 catalytic residue [active] 349101007498 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 349101007499 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 349101007500 FeS/SAM binding site; other site 349101007501 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 349101007502 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 349101007503 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 349101007504 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349101007505 PqqA family; Region: PqqA; cl15372 349101007506 Helix-turn-helix domains; Region: HTH; cl00088 349101007507 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 349101007508 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 349101007509 dimerization interface [polypeptide binding]; other site 349101007510 YCII-related domain; Region: YCII; cl00999 349101007511 cobyric acid synthase; Provisional; Region: PRK00784 349101007512 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101007513 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 349101007514 catalytic triad [active] 349101007515 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 349101007516 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 349101007517 HIGH motif; other site 349101007518 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 349101007519 active site 349101007520 KMSKS motif; other site 349101007521 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 349101007522 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349101007523 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 349101007524 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 349101007525 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 349101007526 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 349101007527 active site 349101007528 dimer interface [polypeptide binding]; other site 349101007529 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 349101007530 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101007531 Walker A/P-loop; other site 349101007532 ATP binding site [chemical binding]; other site 349101007533 Q-loop/lid; other site 349101007534 ABC transporter signature motif; other site 349101007535 Walker B; other site 349101007536 D-loop; other site 349101007537 H-loop/switch region; other site 349101007538 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 349101007539 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101007540 Walker A/P-loop; other site 349101007541 ATP binding site [chemical binding]; other site 349101007542 Q-loop/lid; other site 349101007543 ABC transporter signature motif; other site 349101007544 Walker B; other site 349101007545 D-loop; other site 349101007546 H-loop/switch region; other site 349101007547 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349101007548 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 349101007549 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 349101007550 dimer interface [polypeptide binding]; other site 349101007551 conserved gate region; other site 349101007552 ABC-ATPase subunit interface; other site 349101007553 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349101007554 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 349101007555 dimer interface [polypeptide binding]; other site 349101007556 conserved gate region; other site 349101007557 putative PBP binding loops; other site 349101007558 ABC-ATPase subunit interface; other site 349101007559 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_7; cd08512 349101007560 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 349101007561 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 349101007562 putative FMN binding site [chemical binding]; other site 349101007563 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 349101007564 Protein of unknown function (DUF1467); Region: DUF1467; cl11569 349101007565 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349101007566 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 349101007567 dimer interface [polypeptide binding]; other site 349101007568 substrate binding site [chemical binding]; other site 349101007569 metal binding site [ion binding]; metal-binding site 349101007570 Response regulator receiver domain; Region: Response_reg; pfam00072 349101007571 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 349101007572 active site 349101007573 phosphorylation site [posttranslational modification] 349101007574 intermolecular recognition site; other site 349101007575 dimerization interface [polypeptide binding]; other site 349101007576 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 349101007577 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349101007578 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 349101007579 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 349101007580 dimer interface [polypeptide binding]; other site 349101007581 anticodon binding site; other site 349101007582 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 349101007583 homodimer interface [polypeptide binding]; other site 349101007584 motif 1; other site 349101007585 active site 349101007586 motif 2; other site 349101007587 GAD domain; Region: GAD; pfam02938 349101007588 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 349101007589 active site 349101007590 motif 3; other site 349101007591 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 349101007592 substrate-cofactor binding pocket; other site 349101007593 aminodeoxychorismate synthase; Provisional; Region: PRK07508 349101007594 chorismate binding enzyme; Region: Chorismate_bind; cl10555 349101007595 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 349101007596 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349101007597 ATP-grasp domain; Region: ATP-grasp_4; cl03087 349101007598 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 349101007599 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349101007600 ATP-grasp domain; Region: ATP-grasp_4; cl03087 349101007601 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 349101007602 IMP binding site; other site 349101007603 dimer interface [polypeptide binding]; other site 349101007604 partial ornithine binding site; other site 349101007605 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 349101007606 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 349101007607 ATP binding site [chemical binding]; other site 349101007608 Mg++ binding site [ion binding]; other site 349101007609 motif III; other site 349101007610 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 349101007611 nucleotide binding region [chemical binding]; other site 349101007612 ATP-binding site [chemical binding]; other site 349101007613 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 349101007614 acyl-CoA esterase; Provisional; Region: PRK10673 349101007615 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 349101007616 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 349101007617 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 349101007618 dimer interface [polypeptide binding]; other site 349101007619 active site 349101007620 glycine-pyridoxal phosphate binding site [chemical binding]; other site 349101007621 folate binding site [chemical binding]; other site 349101007622 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 349101007623 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 349101007624 putative active site [active] 349101007625 catalytic residue [active] 349101007626 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 349101007627 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 349101007628 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 349101007629 5S rRNA interface [nucleotide binding]; other site 349101007630 CTC domain interface [polypeptide binding]; other site 349101007631 L16 interface [polypeptide binding]; other site 349101007632 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 349101007633 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 349101007634 phosphate binding site [ion binding]; other site 349101007635 HPP family; Region: HPP; pfam04982 349101007636 FOG: CBS domain [General function prediction only]; Region: COG0517 349101007637 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 349101007638 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 349101007639 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 349101007640 substrate binding site [chemical binding]; other site 349101007641 active site 349101007642 catalytic residues [active] 349101007643 heterodimer interface [polypeptide binding]; other site 349101007644 GTP-binding protein YchF; Reviewed; Region: PRK09601 349101007645 YchF GTPase; Region: YchF; cd01900 349101007646 G1 box; other site 349101007647 GTP/Mg2+ binding site [chemical binding]; other site 349101007648 Switch I region; other site 349101007649 G2 box; other site 349101007650 Switch II region; other site 349101007651 G3 box; other site 349101007652 G4 box; other site 349101007653 G5 box; other site 349101007654 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 349101007655 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 349101007656 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 349101007657 Substrate binding site; other site 349101007658 Cupin domain; Region: Cupin_2; cl09118 349101007659 phosphomannomutase CpsG; Provisional; Region: PRK15414 349101007660 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 349101007661 active site 349101007662 substrate binding site [chemical binding]; other site 349101007663 metal binding site [ion binding]; metal-binding site 349101007664 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 349101007665 active site 349101007666 catalytic residues [active] 349101007667 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101007668 HI0933-like protein; Region: HI0933_like; pfam03486 349101007669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101007670 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 349101007671 Lipopolysaccharide-assembly; Region: LptE; cl01125 349101007672 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 349101007673 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 349101007674 HIGH motif; other site 349101007675 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 349101007676 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349101007677 active site 349101007678 KMSKS motif; other site 349101007679 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 349101007680 tRNA binding surface [nucleotide binding]; other site 349101007681 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 349101007682 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; cl01155 349101007683 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 349101007684 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 349101007685 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349101007686 catalytic residue [active] 349101007687 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 349101007688 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 349101007689 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 349101007690 dimerization interface [polypeptide binding]; other site 349101007691 active site 349101007692 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349101007693 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 349101007694 active site 349101007695 phosphorylation site [posttranslational modification] 349101007696 intermolecular recognition site; other site 349101007697 dimerization interface [polypeptide binding]; other site 349101007698 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 349101007699 DNA binding site [nucleotide binding] 349101007700 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 349101007701 putative catalytic site [active] 349101007702 putative phosphate binding site [ion binding]; other site 349101007703 active site 349101007704 metal binding site A [ion binding]; metal-binding site 349101007705 DNA binding site [nucleotide binding] 349101007706 putative AP binding site [nucleotide binding]; other site 349101007707 putative metal binding site B [ion binding]; other site 349101007708 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349101007709 Helix-turn-helix domains; Region: HTH; cl00088 349101007710 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 349101007711 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 349101007712 diiron binding motif [ion binding]; other site 349101007713 Uncharacterized conserved protein [Function unknown]; Region: COG1633 349101007714 CCC1-related protein family; Region: CCC1_like_1; cd02437 349101007715 Membrane transport protein; Region: Mem_trans; cl09117 349101007716 Predicted esterase [General function prediction only]; Region: COG0627 349101007717 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 349101007718 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 349101007719 ornithine cyclodeaminase; Validated; Region: PRK06141 349101007720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101007721 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 349101007722 Protein of unknown function (DUF3419); Region: DUF3419; cl15422 349101007723 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 349101007724 S-adenosylmethionine binding site [chemical binding]; other site 349101007725 EamA-like transporter family; Region: EamA; cl01037 349101007726 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 349101007727 EamA-like transporter family; Region: EamA; cl01037 349101007728 tartrate dehydrogenase; Provisional; Region: PRK08194 349101007729 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 349101007730 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 349101007731 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 349101007732 substrate binding site [chemical binding]; other site 349101007733 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 349101007734 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 349101007735 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 349101007736 substrate binding site [chemical binding]; other site 349101007737 ligand binding site [chemical binding]; other site 349101007738 SOUL heme-binding protein; Region: SOUL; pfam04832 349101007739 Oligomerisation domain; Region: Oligomerisation; cl00519 349101007740 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 349101007741 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 349101007742 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 349101007743 RNA/DNA hybrid binding site [nucleotide binding]; other site 349101007744 active site 349101007745 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 349101007746 active site 349101007747 phosphorylation site [posttranslational modification] 349101007748 intermolecular recognition site; other site 349101007749 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 349101007750 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 349101007751 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101007752 homodimer interface [polypeptide binding]; other site 349101007753 catalytic residue [active] 349101007754 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 349101007755 active site 349101007756 catalytic residues [active] 349101007757 metal binding site [ion binding]; metal-binding site 349101007758 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 349101007759 active site 349101007760 catalytic residues [active] 349101007761 metal binding site [ion binding]; metal-binding site 349101007762 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 349101007763 active site 349101007764 catalytic residues [active] 349101007765 metal binding site [ion binding]; metal-binding site 349101007766 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 349101007767 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 349101007768 putative active site [active] 349101007769 substrate binding site [chemical binding]; other site 349101007770 putative cosubstrate binding site; other site 349101007771 catalytic site [active] 349101007772 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 349101007773 substrate binding site [chemical binding]; other site 349101007774 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 349101007775 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 349101007776 Walker A/P-loop; other site 349101007777 ATP binding site [chemical binding]; other site 349101007778 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 349101007779 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 349101007780 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 349101007781 Walker B; other site 349101007782 D-loop; other site 349101007783 H-loop/switch region; other site 349101007784 Predicted acetyltransferase [General function prediction only]; Region: COG3153 349101007785 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349101007786 Coenzyme A binding pocket [chemical binding]; other site 349101007787 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 349101007788 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; cl16911 349101007789 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101007790 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 349101007791 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 349101007792 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349101007793 catalytic residue [active] 349101007794 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 349101007795 dihydrodipicolinate synthase; Region: dapA; TIGR00674 349101007796 dimer interface [polypeptide binding]; other site 349101007797 active site 349101007798 catalytic residue [active] 349101007799 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 349101007800 SmpB-tmRNA interface; other site 349101007801 3-mercaptopyruvate sulfurtransferase; Region: PLN02723 349101007802 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 349101007803 active site residue [active] 349101007804 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 349101007805 active site residue [active] 349101007806 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 349101007807 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 349101007808 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101007809 homodimer interface [polypeptide binding]; other site 349101007810 catalytic residue [active] 349101007811 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 349101007812 Nitrogen regulatory protein P-II; Region: P-II; cl00412 349101007813 Nitrogen regulatory protein P-II; Region: P-II; smart00938 349101007814 Transglycosylase; Region: Transgly; cl07896 349101007815 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 349101007816 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 349101007817 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 349101007818 VacJ like lipoprotein; Region: VacJ; cl01073 349101007819 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 349101007820 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 349101007821 Walker A/P-loop; other site 349101007822 ATP binding site [chemical binding]; other site 349101007823 Q-loop/lid; other site 349101007824 ABC transporter signature motif; other site 349101007825 Walker B; other site 349101007826 D-loop; other site 349101007827 H-loop/switch region; other site 349101007828 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 349101007829 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349101007830 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 349101007831 homotrimer interaction site [polypeptide binding]; other site 349101007832 putative active site [active] 349101007833 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 349101007834 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 349101007835 active site 349101007836 catalytic site [active] 349101007837 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349101007838 Protein of unknown function, DUF482; Region: DUF482; pfam04339 349101007839 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 349101007840 putative C-terminal domain interface [polypeptide binding]; other site 349101007841 putative GSH binding site (G-site) [chemical binding]; other site 349101007842 putative dimer interface [polypeptide binding]; other site 349101007843 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 349101007844 dimer interface [polypeptide binding]; other site 349101007845 N-terminal domain interface [polypeptide binding]; other site 349101007846 putative substrate binding pocket (H-site) [chemical binding]; other site 349101007847 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 349101007848 aromatic arch; other site 349101007849 DCoH dimer interaction site [polypeptide binding]; other site 349101007850 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 349101007851 DCoH tetramer interaction site [polypeptide binding]; other site 349101007852 substrate binding site [chemical binding]; other site 349101007853 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 349101007854 catalytic triad [active] 349101007855 dimer interface [polypeptide binding]; other site 349101007856 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 349101007857 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349101007858 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; cl16911 349101007859 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 349101007860 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 349101007861 motif II; other site 349101007862 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 349101007863 putative heme binding pocket [chemical binding]; other site 349101007864 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 349101007865 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 349101007866 metal binding site [ion binding]; metal-binding site 349101007867 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 349101007868 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 349101007869 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 349101007870 ABC-ATPase subunit interface; other site 349101007871 dimer interface [polypeptide binding]; other site 349101007872 putative PBP binding regions; other site 349101007873 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 349101007874 ABC-ATPase subunit interface; other site 349101007875 dimer interface [polypeptide binding]; other site 349101007876 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 349101007877 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 349101007878 active site 349101007879 phosphorylation site [posttranslational modification] 349101007880 intermolecular recognition site; other site 349101007881 dimerization interface [polypeptide binding]; other site 349101007882 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 349101007883 DNA binding residues [nucleotide binding] 349101007884 dimerization interface [polypeptide binding]; other site 349101007885 PAS domain S-box; Region: sensory_box; TIGR00229 349101007886 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 349101007887 putative active site [active] 349101007888 heme pocket [chemical binding]; other site 349101007889 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 349101007890 dimer interface [polypeptide binding]; other site 349101007891 phosphorylation site [posttranslational modification] 349101007892 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 349101007893 ATP binding site [chemical binding]; other site 349101007894 Mg2+ binding site [ion binding]; other site 349101007895 G-X-G motif; other site 349101007896 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 349101007897 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349101007898 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 349101007899 DctM-like transporters; Region: DctM; pfam06808 349101007900 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349101007901 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 349101007902 substrate binding site [chemical binding]; other site 349101007903 oxyanion hole (OAH) forming residues; other site 349101007904 trimer interface [polypeptide binding]; other site 349101007905 classical (c) SDRs; Region: SDR_c; cd05233 349101007906 NAD(P) binding site [chemical binding]; other site 349101007907 active site 349101007908 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 349101007909 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 349101007910 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 349101007911 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 349101007912 active site 349101007913 short chain dehydrogenase; Provisional; Region: PRK06701 349101007914 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 349101007915 NAD binding site [chemical binding]; other site 349101007916 metal binding site [ion binding]; metal-binding site 349101007917 active site 349101007918 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 349101007919 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 349101007920 Gram-negative bacterial tonB protein; Region: TonB; cl10048 349101007921 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 349101007922 active site 349101007923 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 349101007924 putative MPT binding site; other site 349101007925 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349101007926 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349101007927 ligand binding site [chemical binding]; other site 349101007928 transcriptional regulator; Provisional; Region: PRK10632 349101007929 Helix-turn-helix domains; Region: HTH; cl00088 349101007930 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 349101007931 putative effector binding pocket; other site 349101007932 dimerization interface [polypeptide binding]; other site 349101007933 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 349101007934 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 349101007935 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 349101007936 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 349101007937 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 349101007938 putative active site [active] 349101007939 Ap4A binding site [chemical binding]; other site 349101007940 nudix motif; other site 349101007941 putative metal binding site [ion binding]; other site 349101007942 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 349101007943 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 349101007944 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 349101007945 protein binding site [polypeptide binding]; other site 349101007946 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 349101007947 Catalytic dyad [active] 349101007948 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 349101007949 Sulfatase; Region: Sulfatase; cl10460 349101007950 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 349101007951 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 349101007952 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 349101007953 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 349101007954 FeS/SAM binding site; other site 349101007955 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 349101007956 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 349101007957 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 349101007958 trehalose synthase; Region: treS_nterm; TIGR02456 349101007959 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 349101007960 active site 349101007961 catalytic site [active] 349101007962 Protein of unknown function DUF72; Region: DUF72; cl00777 349101007963 NMT1/THI5 like; Region: NMT1; pfam09084 349101007964 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 349101007965 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 349101007966 Walker A/P-loop; other site 349101007967 ATP binding site [chemical binding]; other site 349101007968 Q-loop/lid; other site 349101007969 ABC transporter signature motif; other site 349101007970 Walker B; other site 349101007971 D-loop; other site 349101007972 H-loop/switch region; other site 349101007973 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 349101007974 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 349101007975 dimer interface [polypeptide binding]; other site 349101007976 conserved gate region; other site 349101007977 putative PBP binding loops; other site 349101007978 ABC-ATPase subunit interface; other site 349101007979 aminotransferase; Validated; Region: PRK07678 349101007980 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 349101007981 inhibitor-cofactor binding pocket; inhibition site 349101007982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101007983 catalytic residue [active] 349101007984 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 349101007985 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 349101007986 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 349101007987 putative active site [active] 349101007988 putative substrate binding site [chemical binding]; other site 349101007989 putative cosubstrate binding site; other site 349101007990 catalytic site [active] 349101007991 Transmembrane secretion effector; Region: MFS_3; pfam05977 349101007992 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 349101007993 putative substrate translocation pore; other site 349101007994 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 349101007995 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 349101007996 active site 349101007997 DNA binding site [nucleotide binding] 349101007998 Int/Topo IB signature motif; other site 349101007999 catalytic residues [active] 349101008000 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 349101008001 Domain of unknown function (DUF305); Region: DUF305; cl15795 349101008002 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 349101008003 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 349101008004 active site 349101008005 homotetramer interface [polypeptide binding]; other site 349101008006 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 349101008007 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 349101008008 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 349101008009 metal binding site [ion binding]; metal-binding site 349101008010 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 349101008011 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 349101008012 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 349101008013 Uncharacterized conserved protein [Function unknown]; Region: COG2308 349101008014 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 349101008015 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 349101008016 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 349101008017 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 349101008018 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 349101008019 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 349101008020 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 349101008021 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 349101008022 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 349101008023 active site 349101008024 metal binding site [ion binding]; metal-binding site 349101008025 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 349101008026 Protein of unknown function (DUF952); Region: DUF952; cl01393 349101008027 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 349101008028 quinone interaction residues [chemical binding]; other site 349101008029 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 349101008030 active site 349101008031 catalytic residues [active] 349101008032 FMN binding site [chemical binding]; other site 349101008033 substrate binding site [chemical binding]; other site 349101008034 AsnC family; Region: AsnC_trans_reg; pfam01037 349101008035 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101008036 Family description; Region: UvrD_C_2; cl15862 349101008037 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 349101008038 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 349101008039 NAD(P) binding site [chemical binding]; other site 349101008040 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 349101008041 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 349101008042 B12 binding site [chemical binding]; other site 349101008043 cobalt ligand [ion binding]; other site 349101008044 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 349101008045 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 349101008046 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349101008047 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349101008048 MAPEG family; Region: MAPEG; cl09190 349101008049 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 349101008050 E3 interaction surface; other site 349101008051 lipoyl attachment site [posttranslational modification]; other site 349101008052 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 349101008053 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 349101008054 E3 interaction surface; other site 349101008055 lipoyl attachment site [posttranslational modification]; other site 349101008056 e3 binding domain; Region: E3_binding; pfam02817 349101008057 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 349101008058 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 349101008059 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 349101008060 TPP-binding site [chemical binding]; other site 349101008061 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 349101008062 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 349101008063 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101008064 CoA-ligase; Region: Ligase_CoA; cl02894 349101008065 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 349101008066 ATP-grasp domain; Region: ATP-grasp_4; cl03087 349101008067 CoA-ligase; Region: Ligase_CoA; cl02894 349101008068 malate dehydrogenase; Reviewed; Region: PRK06223 349101008069 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 349101008070 NAD(P) binding site [chemical binding]; other site 349101008071 dimer interface [polypeptide binding]; other site 349101008072 tetramer (dimer of dimers) interface [polypeptide binding]; other site 349101008073 substrate binding site [chemical binding]; other site 349101008074 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 349101008075 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 349101008076 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 349101008077 Phospholipid methyltransferase; Region: PEMT; cl00763 349101008078 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 349101008079 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 349101008080 putative active site [active] 349101008081 putative catalytic site [active] 349101008082 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 349101008083 putative active site [active] 349101008084 putative catalytic site [active] 349101008085 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 349101008086 Iron-sulfur protein interface; other site 349101008087 proximal quinone binding site [chemical binding]; other site 349101008088 SdhD (CybS) interface [polypeptide binding]; other site 349101008089 proximal heme binding site [chemical binding]; other site 349101008090 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 349101008091 putative SdhC subunit interface [polypeptide binding]; other site 349101008092 putative proximal heme binding site [chemical binding]; other site 349101008093 putative Iron-sulfur protein interface [polypeptide binding]; other site 349101008094 putative proximal quinone binding site; other site 349101008095 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 349101008096 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101008097 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 349101008098 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 349101008099 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 349101008100 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101008101 DNA-binding site [nucleotide binding]; DNA binding site 349101008102 FCD domain; Region: FCD; cl11656 349101008103 Protein of unknown function DUF45; Region: DUF45; cl00636 349101008104 TIGR02300 family protein; Region: FYDLN_acid 349101008105 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 349101008106 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 349101008107 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 349101008108 active site 349101008109 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 349101008110 EamA-like transporter family; Region: EamA; cl01037 349101008111 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101008112 active site 349101008113 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 349101008114 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 349101008115 Walker A/P-loop; other site 349101008116 ATP binding site [chemical binding]; other site 349101008117 Q-loop/lid; other site 349101008118 ABC transporter signature motif; other site 349101008119 Walker B; other site 349101008120 D-loop; other site 349101008121 H-loop/switch region; other site 349101008122 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 349101008123 TM-ABC transporter signature motif; other site 349101008124 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 349101008125 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 349101008126 ligand binding site [chemical binding]; other site 349101008127 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 349101008128 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 349101008129 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 349101008130 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 349101008131 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 349101008132 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 349101008133 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 349101008134 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 349101008135 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 349101008136 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 349101008137 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 349101008138 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 349101008139 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 349101008140 transmembrane helices; other site 349101008141 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 349101008142 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 349101008143 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 349101008144 Fe-S cluster binding site [ion binding]; other site 349101008145 active site 349101008146 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 349101008147 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 349101008148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101008149 dihydroorotase; Validated; Region: PRK09059 349101008150 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 349101008151 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 349101008152 active site 349101008153 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 349101008154 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 349101008155 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 349101008156 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 349101008157 UbiA prenyltransferase family; Region: UbiA; cl00337 349101008158 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349101008159 ligand binding site [chemical binding]; other site 349101008160 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 349101008161 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 349101008162 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349101008163 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 349101008164 tetramerization interface [polypeptide binding]; other site 349101008165 NAD(P) binding site [chemical binding]; other site 349101008166 catalytic residues [active] 349101008167 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 349101008168 Domain of unknown function DUF21; Region: DUF21; pfam01595 349101008169 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 349101008170 Transporter associated domain; Region: CorC_HlyC; cl08393 349101008171 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349101008172 von Willebrand factor; Region: vWF_A; pfam12450 349101008173 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 349101008174 VWA subgroup: 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...; Region: vWA_subgroup; cd01465 349101008175 metal ion-dependent adhesion site (MIDAS); other site 349101008176 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 349101008177 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 349101008178 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 349101008179 putative dimer interface [polypeptide binding]; other site 349101008180 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 349101008181 active site 349101008182 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 349101008183 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 349101008184 Cysteine-rich domain; Region: CCG; pfam02754 349101008185 Cysteine-rich domain; Region: CCG; pfam02754 349101008186 FAD binding domain; Region: FAD_binding_4; pfam01565 349101008187 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 349101008188 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 349101008189 FAD binding domain; Region: FAD_binding_4; pfam01565 349101008190 Protein of unknown function, DUF599; Region: DUF599; cl01575 349101008191 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 349101008192 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 349101008193 conserved cys residue [active] 349101008194 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 349101008195 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 349101008196 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 349101008197 MoxR-like ATPases [General function prediction only]; Region: COG0714 349101008198 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 349101008199 Walker A motif; other site 349101008200 ATP binding site [chemical binding]; other site 349101008201 Walker B motif; other site 349101008202 arginine finger; other site 349101008203 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 349101008204 Zinc-finger domain; Region: zf-CHCC; cl01821 349101008205 DNA polymerase I; Provisional; Region: PRK05755 349101008206 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 349101008207 active site 349101008208 metal binding site 1 [ion binding]; metal-binding site 349101008209 putative 5' ssDNA interaction site; other site 349101008210 metal binding site 3; metal-binding site 349101008211 metal binding site 2 [ion binding]; metal-binding site 349101008212 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 349101008213 putative DNA binding site [nucleotide binding]; other site 349101008214 putative metal binding site [ion binding]; other site 349101008215 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 349101008216 active site 349101008217 catalytic site [active] 349101008218 substrate binding site [chemical binding]; other site 349101008219 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 349101008220 active site 349101008221 DNA binding site [nucleotide binding] 349101008222 catalytic site [active] 349101008223 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 349101008224 nucleotide binding site/active site [active] 349101008225 HIT family signature motif; other site 349101008226 catalytic residue [active] 349101008227 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine...; Region: adenosine_kinase; cd01168 349101008228 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 349101008229 substrate binding site [chemical binding]; other site 349101008230 ATP binding site [chemical binding]; other site 349101008231 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 349101008232 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 349101008233 minor groove reading motif; other site 349101008234 helix-hairpin-helix signature motif; other site 349101008235 substrate binding pocket [chemical binding]; other site 349101008236 active site 349101008237 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 349101008238 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349101008239 Helix-turn-helix domain; Region: HTH_18; pfam12833 349101008240 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 349101008241 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 349101008242 DNA binding site [nucleotide binding] 349101008243 active site 349101008244 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349101008245 ligand binding site [chemical binding]; other site 349101008246 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 349101008247 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101008248 DNA-binding site [nucleotide binding]; DNA binding site 349101008249 FCD domain; Region: FCD; cl11656 349101008250 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 349101008251 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 349101008252 ATP synthase subunit C; Region: ATP-synt_C; cl00466 349101008253 ATP synthase A chain; Region: ATP-synt_A; cl00413 349101008254 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 349101008255 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 349101008256 dimerization interface [polypeptide binding]; other site 349101008257 putative DNA binding site [nucleotide binding]; other site 349101008258 putative Zn2+ binding site [ion binding]; other site 349101008259 malonyl-CoA synthase; Validated; Region: PRK07514 349101008260 AMP-binding enzyme; Region: AMP-binding; cl15778 349101008261 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349101008262 ATPase MipZ; Region: MipZ; pfam09140 349101008263 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 349101008264 P-loop; other site 349101008265 Magnesium ion binding site [ion binding]; other site 349101008266 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 349101008267 Magnesium ion binding site [ion binding]; other site 349101008268 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 349101008269 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 349101008270 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 349101008271 RimM N-terminal domain; Region: RimM; pfam01782 349101008272 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 349101008273 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 349101008274 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 349101008275 Chorismate mutase type II; Region: CM_2; cl00693 349101008276 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 349101008277 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 349101008278 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 349101008279 signal recognition particle protein; Provisional; Region: PRK10867 349101008280 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 349101008281 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 349101008282 P loop; other site 349101008283 GTP binding site [chemical binding]; other site 349101008284 Signal peptide binding domain; Region: SRP_SPB; pfam02978 349101008285 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349101008286 Helix-turn-helix domains; Region: HTH; cl00088 349101008287 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101008288 dimerization interface [polypeptide binding]; other site 349101008289 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 349101008290 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 349101008291 ATP binding site [chemical binding]; other site 349101008292 Mg2+ binding site [ion binding]; other site 349101008293 G-X-G motif; other site 349101008294 mercuric reductase; Validated; Region: PRK06370 349101008295 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349101008296 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349101008297 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 349101008298 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 349101008299 Ribonuclease P; Region: Ribonuclease_P; cl00457 349101008300 Haemolytic domain; Region: Haemolytic; cl00506 349101008301 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 349101008302 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 349101008303 Ligand Binding Site [chemical binding]; other site 349101008304 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349101008305 metal binding site [ion binding]; metal-binding site 349101008306 active site 349101008307 I-site; other site 349101008308 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 349101008309 membrane protein insertase; Provisional; Region: PRK01318 349101008310 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 349101008311 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 349101008312 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 349101008313 MOSC domain; Region: MOSC; pfam03473 349101008314 Predicted GTPase [General function prediction only]; Region: COG0218 349101008315 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 349101008316 G1 box; other site 349101008317 GTP/Mg2+ binding site [chemical binding]; other site 349101008318 Switch I region; other site 349101008319 G2 box; other site 349101008320 G3 box; other site 349101008321 Switch II region; other site 349101008322 G4 box; other site 349101008323 G5 box; other site 349101008324 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 349101008325 classical (c) SDRs; Region: SDR_c; cd05233 349101008326 NAD(P) binding site [chemical binding]; other site 349101008327 active site 349101008328 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 349101008329 feedback inhibition sensing region; other site 349101008330 homohexameric interface [polypeptide binding]; other site 349101008331 nucleotide binding site [chemical binding]; other site 349101008332 N-acetyl-L-glutamate binding site [chemical binding]; other site 349101008333 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 349101008334 catalytic core [active] 349101008335 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 349101008336 MoaE homodimer interface [polypeptide binding]; other site 349101008337 MoaD interaction [polypeptide binding]; other site 349101008338 active site residues [active] 349101008339 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 349101008340 MoaE interaction surface [polypeptide binding]; other site 349101008341 MoeB interaction surface [polypeptide binding]; other site 349101008342 thiocarboxylated glycine; other site 349101008343 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 349101008344 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 349101008345 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 349101008346 GIY-YIG motif/motif A; other site 349101008347 active site 349101008348 catalytic site [active] 349101008349 putative DNA binding site [nucleotide binding]; other site 349101008350 metal binding site [ion binding]; metal-binding site 349101008351 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 349101008352 pteridine reductase; Provisional; Region: PRK09135 349101008353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101008354 NAD(P) binding site [chemical binding]; other site 349101008355 active site 349101008356 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 349101008357 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 349101008358 tandem repeat interface [polypeptide binding]; other site 349101008359 oligomer interface [polypeptide binding]; other site 349101008360 active site residues [active] 349101008361 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349101008362 Helix-turn-helix domains; Region: HTH; cl00088 349101008363 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 349101008364 dimerization interface [polypeptide binding]; other site 349101008365 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 349101008366 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 349101008367 putative dimer interface [polypeptide binding]; other site 349101008368 [2Fe-2S] cluster binding site [ion binding]; other site 349101008369 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 349101008370 putative dimer interface [polypeptide binding]; other site 349101008371 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 349101008372 SLBB domain; Region: SLBB; pfam10531 349101008373 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 349101008374 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 349101008375 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 349101008376 catalytic loop [active] 349101008377 iron binding site [ion binding]; other site 349101008378 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 349101008379 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 349101008380 [4Fe-4S] binding site [ion binding]; other site 349101008381 molybdopterin cofactor binding site; other site 349101008382 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 349101008383 molybdopterin cofactor binding site; other site 349101008384 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 349101008385 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 349101008386 colanic acid biosynthesis glycosyltransferase WcaL; Region: wcaL; TIGR04005 349101008387 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 349101008388 putative ADP-binding pocket [chemical binding]; other site 349101008389 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349101008390 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 349101008391 active site 349101008392 phosphorylation site [posttranslational modification] 349101008393 intermolecular recognition site; other site 349101008394 dimerization interface [polypeptide binding]; other site 349101008395 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 349101008396 DNA binding site [nucleotide binding] 349101008397 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 349101008398 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 349101008399 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; pfam01262 349101008400 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101008401 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101008402 NAD(P) binding site [chemical binding]; other site 349101008403 active site 349101008404 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 349101008405 MFS/sugar transport protein; Region: MFS_2; pfam13347 349101008406 MFS/sugar transport protein; Region: MFS_2; pfam13347 349101008407 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 349101008408 Uncharacterized conserved protein [Function unknown]; Region: COG3496 349101008409 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 349101008410 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101008411 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 349101008412 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349101008413 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 349101008414 DNA binding residues [nucleotide binding] 349101008415 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 349101008416 Putative zinc-finger; Region: zf-HC2; cl15806 349101008417 Cupin domain; Region: Cupin_2; cl09118 349101008418 RmuC family; Region: RmuC; pfam02646 349101008419 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 349101008420 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 349101008421 ATP binding site [chemical binding]; other site 349101008422 Mg2+ binding site [ion binding]; other site 349101008423 G-X-G motif; other site 349101008424 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 349101008425 ATP binding site [chemical binding]; other site 349101008426 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 349101008427 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 349101008428 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 349101008429 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 349101008430 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 349101008431 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 349101008432 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 349101008433 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 349101008434 lipoprotein signal peptidase; Provisional; Region: PRK14787 349101008435 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 349101008436 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 349101008437 purine monophosphate binding site [chemical binding]; other site 349101008438 dimer interface [polypeptide binding]; other site 349101008439 putative catalytic residues [active] 349101008440 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 349101008441 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 349101008442 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cd00447 349101008443 putative RNA binding site [nucleotide binding]; other site 349101008444 16S rRNA methyltransferase B; Provisional; Region: PRK10901 349101008445 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 349101008446 S-adenosylmethionine binding site [chemical binding]; other site 349101008447 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 349101008448 dihydrodipicolinate reductase; Provisional; Region: PRK00048 349101008449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101008450 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 349101008451 Ribosome-binding factor A; Region: RBFA; cl00542 349101008452 Predicted periplasmic protein [Function unknown]; Region: COG3698 349101008453 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 349101008454 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 349101008455 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 349101008456 RNA binding site [nucleotide binding]; other site 349101008457 active site 349101008458 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 349101008459 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 349101008460 dimer interface [polypeptide binding]; other site 349101008461 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101008462 catalytic residue [active] 349101008463 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 349101008464 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 349101008465 16S/18S rRNA binding site [nucleotide binding]; other site 349101008466 S13e-L30e interaction site [polypeptide binding]; other site 349101008467 25S rRNA binding site [nucleotide binding]; other site 349101008468 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 349101008469 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 349101008470 RNase E interface [polypeptide binding]; other site 349101008471 trimer interface [polypeptide binding]; other site 349101008472 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 349101008473 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 349101008474 RNase E interface [polypeptide binding]; other site 349101008475 trimer interface [polypeptide binding]; other site 349101008476 active site 349101008477 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 349101008478 putative nucleic acid binding region [nucleotide binding]; other site 349101008479 G-X-X-G motif; other site 349101008480 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 349101008481 RNA binding site [nucleotide binding]; other site 349101008482 domain interface; other site 349101008483 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 349101008484 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349101008485 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 349101008486 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349101008487 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 349101008488 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 349101008489 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101008490 Walker A/P-loop; other site 349101008491 ATP binding site [chemical binding]; other site 349101008492 Q-loop/lid; other site 349101008493 ABC transporter signature motif; other site 349101008494 Walker B; other site 349101008495 D-loop; other site 349101008496 H-loop/switch region; other site 349101008497 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 349101008498 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349101008499 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 349101008500 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 349101008501 trimer interface [polypeptide binding]; other site 349101008502 active site 349101008503 substrate binding site [chemical binding]; other site 349101008504 CoA binding site [chemical binding]; other site 349101008505 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 349101008506 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 349101008507 Transglycosylase SLT domain; Region: SLT_2; pfam13406 349101008508 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 349101008509 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 349101008510 ribonuclease R; Region: RNase_R; TIGR02063 349101008511 RNB domain; Region: RNB; pfam00773 349101008512 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 349101008513 RNA binding site [nucleotide binding]; other site 349101008514 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 349101008515 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349101008516 Coenzyme A binding pocket [chemical binding]; other site 349101008517 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 349101008518 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 349101008519 metal binding site [ion binding]; metal-binding site 349101008520 dimer interface [polypeptide binding]; other site 349101008521 Protein of unknown function (DUF421); Region: DUF421; cl00990 349101008522 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 349101008523 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 349101008524 trimer interface [polypeptide binding]; other site 349101008525 active site 349101008526 substrate binding site [chemical binding]; other site 349101008527 CoA binding site [chemical binding]; other site 349101008528 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 349101008529 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 349101008530 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 349101008531 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 349101008532 TPP-binding site; other site 349101008533 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 349101008534 PYR/PP interface [polypeptide binding]; other site 349101008535 dimer interface [polypeptide binding]; other site 349101008536 TPP binding site [chemical binding]; other site 349101008537 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349101008538 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 349101008539 substrate binding pocket [chemical binding]; other site 349101008540 chain length determination region; other site 349101008541 substrate-Mg2+ binding site; other site 349101008542 catalytic residues [active] 349101008543 aspartate-rich region 1; other site 349101008544 active site lid residues [active] 349101008545 aspartate-rich region 2; other site 349101008546 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 349101008547 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 349101008548 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 349101008549 osmolarity response regulator; Provisional; Region: ompR; PRK09468 349101008550 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 349101008551 active site 349101008552 phosphorylation site [posttranslational modification] 349101008553 intermolecular recognition site; other site 349101008554 dimerization interface [polypeptide binding]; other site 349101008555 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 349101008556 DNA binding site [nucleotide binding] 349101008557 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349101008558 Helix-turn-helix domains; Region: HTH; cl00088 349101008559 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 349101008560 homodimer interface [polypeptide binding]; other site 349101008561 substrate-cofactor binding pocket; other site 349101008562 catalytic residue [active] 349101008563 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 349101008564 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 349101008565 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 349101008566 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 349101008567 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 349101008568 C-terminal domain interface [polypeptide binding]; other site 349101008569 GSH binding site (G-site) [chemical binding]; other site 349101008570 dimer interface [polypeptide binding]; other site 349101008571 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 349101008572 N-terminal domain interface [polypeptide binding]; other site 349101008573 dimer interface [polypeptide binding]; other site 349101008574 substrate binding pocket (H-site) [chemical binding]; other site 349101008575 Transglycosylase; Region: Transgly; cl07896 349101008576 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 349101008577 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 349101008578 active site 349101008579 dimer interface [polypeptide binding]; other site 349101008580 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 349101008581 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 349101008582 active site 349101008583 FMN binding site [chemical binding]; other site 349101008584 substrate binding site [chemical binding]; other site 349101008585 3Fe-4S cluster binding site [ion binding]; other site 349101008586 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 349101008587 domain interface; other site 349101008588 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 349101008589 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 349101008590 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349101008591 Bacitracin resistance protein BacA; Region: BacA; cl00858 349101008592 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 349101008593 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 349101008594 putative NAD(P) binding site [chemical binding]; other site 349101008595 active site 349101008596 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 349101008597 catalytic site [active] 349101008598 putative active site [active] 349101008599 putative substrate binding site [chemical binding]; other site 349101008600 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 349101008601 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 349101008602 putative active site [active] 349101008603 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 349101008604 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 349101008605 OstA-like protein; Region: OstA; cl00844 349101008606 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 349101008607 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 349101008608 Walker A/P-loop; other site 349101008609 ATP binding site [chemical binding]; other site 349101008610 Q-loop/lid; other site 349101008611 ABC transporter signature motif; other site 349101008612 Walker B; other site 349101008613 D-loop; other site 349101008614 H-loop/switch region; other site 349101008615 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 349101008616 30S subunit binding site; other site 349101008617 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 349101008618 active site 349101008619 phosphorylation site [posttranslational modification] 349101008620 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 349101008621 active site 349101008622 tetramer interface; other site 349101008623 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 349101008624 active site 349101008625 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 349101008626 active site 349101008627 ribosome maturation protein RimP; Reviewed; Region: PRK00092 349101008628 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 349101008629 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 349101008630 Sm1 motif; other site 349101008631 D1 - D2 interaction site; other site 349101008632 D3 - B interaction site; other site 349101008633 Hfq - Hfq interaction site; other site 349101008634 RNA binding pocket [nucleotide binding]; other site 349101008635 Sm2 motif; other site 349101008636 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 349101008637 NusA N-terminal domain; Region: NusA_N; pfam08529 349101008638 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 349101008639 RNA binding site [nucleotide binding]; other site 349101008640 homodimer interface [polypeptide binding]; other site 349101008641 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; cl00098 349101008642 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 349101008643 G-X-X-G motif; other site 349101008644 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 349101008645 hypothetical protein; Provisional; Region: PRK09190 349101008646 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 349101008647 putative RNA binding cleft [nucleotide binding]; other site 349101008648 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 349101008649 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 349101008650 translation initiation factor IF-2; Region: IF-2; TIGR00487 349101008651 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 349101008652 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 349101008653 G1 box; other site 349101008654 putative GEF interaction site [polypeptide binding]; other site 349101008655 GTP/Mg2+ binding site [chemical binding]; other site 349101008656 Switch I region; other site 349101008657 G2 box; other site 349101008658 G3 box; other site 349101008659 Switch II region; other site 349101008660 G4 box; other site 349101008661 G5 box; other site 349101008662 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 349101008663 Translation-initiation factor 2; Region: IF-2; pfam11987 349101008664 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 349101008665 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 349101008666 active site 349101008667 8-oxo-dGMP binding site [chemical binding]; other site 349101008668 nudix motif; other site 349101008669 metal binding site [ion binding]; metal-binding site 349101008670 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 349101008671 heterotetramer interface [polypeptide binding]; other site 349101008672 active site pocket [active] 349101008673 cleavage site 349101008674 PPIC-type PPIASE domain; Region: Rotamase; cl08278 349101008675 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 349101008676 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 349101008677 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 349101008678 SEC-C motif; Region: SEC-C; pfam02810 349101008679 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101008680 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349101008681 ligand binding site [chemical binding]; other site 349101008682 hypothetical protein; Reviewed; Region: PRK00024 349101008683 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 349101008684 MPN+ (JAMM) motif; other site 349101008685 Zinc-binding site [ion binding]; other site 349101008686 chaperone protein DnaJ; Provisional; Region: PRK10767 349101008687 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 349101008688 HSP70 interaction site [polypeptide binding]; other site 349101008689 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 349101008690 substrate binding site [polypeptide binding]; other site 349101008691 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 349101008692 Zn binding sites [ion binding]; other site 349101008693 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 349101008694 dimer interface [polypeptide binding]; other site 349101008695 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 349101008696 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 349101008697 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 349101008698 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 349101008699 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 349101008700 S-adenosylmethionine binding site [chemical binding]; other site 349101008701 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 349101008702 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 349101008703 N- and C-terminal domain interface [polypeptide binding]; other site 349101008704 active site 349101008705 catalytic site [active] 349101008706 metal binding site [ion binding]; metal-binding site 349101008707 xylulose binding site [chemical binding]; other site 349101008708 putative ATP binding site [chemical binding]; other site 349101008709 homodimer interface [polypeptide binding]; other site 349101008710 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 349101008711 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101008712 Walker A/P-loop; other site 349101008713 ATP binding site [chemical binding]; other site 349101008714 Q-loop/lid; other site 349101008715 ABC transporter signature motif; other site 349101008716 Walker B; other site 349101008717 D-loop; other site 349101008718 H-loop/switch region; other site 349101008719 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 349101008720 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 349101008721 TM-ABC transporter signature motif; other site 349101008722 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 349101008723 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 349101008724 putative ligand binding site [chemical binding]; other site 349101008725 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 349101008726 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 349101008727 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 349101008728 Surface antigen; Region: Bac_surface_Ag; cl03097 349101008729 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 349101008730 AsmA-like C-terminal region; Region: AsmA_2; cl15864 349101008731 Family of unknown function (DUF490); Region: DUF490; pfam04357 349101008732 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 349101008733 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 349101008734 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 349101008735 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 349101008736 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 349101008737 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 349101008738 NAD(P) binding site [chemical binding]; other site 349101008739 homodimer interface [polypeptide binding]; other site 349101008740 substrate binding site [chemical binding]; other site 349101008741 active site 349101008742 Bacterial sugar transferase; Region: Bac_transf; cl00939 349101008743 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101008744 NAD(P) binding site [chemical binding]; other site 349101008745 active site 349101008746 Transcriptional regulators [Transcription]; Region: MarR; COG1846 349101008747 Helix-turn-helix domains; Region: HTH; cl00088 349101008748 Predicted amidohydrolase [General function prediction only]; Region: COG0388 349101008749 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 349101008750 putative active site [active] 349101008751 catalytic triad [active] 349101008752 dimer interface [polypeptide binding]; other site 349101008753 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 349101008754 GSH binding site [chemical binding]; other site 349101008755 catalytic residues [active] 349101008756 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 349101008757 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 349101008758 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; cl16911 349101008759 ferrochelatase; Reviewed; Region: hemH; PRK00035 349101008760 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 349101008761 C-terminal domain interface [polypeptide binding]; other site 349101008762 active site 349101008763 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 349101008764 active site 349101008765 N-terminal domain interface [polypeptide binding]; other site 349101008766 L,D-transpeptidase; Provisional; Region: PRK10190 349101008767 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 349101008768 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 349101008769 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 349101008770 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 349101008771 TRAM domain; Region: TRAM; cl01282 349101008772 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 349101008773 S-adenosylmethionine binding site [chemical binding]; other site 349101008774 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 349101008775 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101008776 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 349101008777 Walker A/P-loop; other site 349101008778 ATP binding site [chemical binding]; other site 349101008779 Q-loop/lid; other site 349101008780 ABC transporter signature motif; other site 349101008781 Walker B; other site 349101008782 D-loop; other site 349101008783 H-loop/switch region; other site 349101008784 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349101008785 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 349101008786 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101008787 Walker A/P-loop; other site 349101008788 ATP binding site [chemical binding]; other site 349101008789 Q-loop/lid; other site 349101008790 ABC transporter signature motif; other site 349101008791 Walker B; other site 349101008792 D-loop; other site 349101008793 H-loop/switch region; other site 349101008794 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 349101008795 active site 349101008796 NTP binding site [chemical binding]; other site 349101008797 metal binding triad [ion binding]; metal-binding site 349101008798 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 349101008799 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 349101008800 putative active site [active] 349101008801 putative CoA binding site [chemical binding]; other site 349101008802 nudix motif; other site 349101008803 metal binding site [ion binding]; metal-binding site 349101008804 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 349101008805 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 349101008806 dimerization interface [polypeptide binding]; other site 349101008807 domain crossover interface; other site 349101008808 redox-dependent activation switch; other site 349101008809 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 349101008810 nudix motif; other site 349101008811 Response regulator receiver domain; Region: Response_reg; pfam00072 349101008812 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 349101008813 active site 349101008814 phosphorylation site [posttranslational modification] 349101008815 intermolecular recognition site; other site 349101008816 dimerization interface [polypeptide binding]; other site 349101008817 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 349101008818 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 349101008819 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 349101008820 threonine dehydratase; Validated; Region: PRK08639 349101008821 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 349101008822 tetramer interface [polypeptide binding]; other site 349101008823 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101008824 catalytic residue [active] 349101008825 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 349101008826 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 349101008827 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 349101008828 ANP binding site [chemical binding]; other site 349101008829 Substrate Binding Site II [chemical binding]; other site 349101008830 Substrate Binding Site I [chemical binding]; other site 349101008831 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 349101008832 putative metal binding site [ion binding]; other site 349101008833 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 349101008834 homodimer interface [polypeptide binding]; other site 349101008835 substrate-cofactor binding pocket; other site 349101008836 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101008837 catalytic residue [active] 349101008838 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 349101008839 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 349101008840 substrate binding site [chemical binding]; other site 349101008841 dimer interface [polypeptide binding]; other site 349101008842 ATP binding site [chemical binding]; other site 349101008843 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 349101008844 Malic enzyme, N-terminal domain; Region: malic; pfam00390 349101008845 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 349101008846 putative NAD(P) binding site [chemical binding]; other site 349101008847 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 349101008848 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 349101008849 MutS domain I; Region: MutS_I; pfam01624 349101008850 MutS domain II; Region: MutS_II; pfam05188 349101008851 MutS family domain IV; Region: MutS_IV; pfam05190 349101008852 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 349101008853 Walker A/P-loop; other site 349101008854 ATP binding site [chemical binding]; other site 349101008855 Q-loop/lid; other site 349101008856 ABC transporter signature motif; other site 349101008857 Walker B; other site 349101008858 D-loop; other site 349101008859 H-loop/switch region; other site 349101008860 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 349101008861 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 349101008862 dimer interface [polypeptide binding]; other site 349101008863 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 349101008864 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 349101008865 Helix-turn-helix domains; Region: HTH; cl00088 349101008866 ribonuclease PH; Reviewed; Region: rph; PRK00173 349101008867 Ribonuclease PH; Region: RNase_PH_bact; cd11362 349101008868 hexamer interface [polypeptide binding]; other site 349101008869 active site 349101008870 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 349101008871 active site 349101008872 dimerization interface [polypeptide binding]; other site 349101008873 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_6; cd06154 349101008874 homotrimer interaction site [polypeptide binding]; other site 349101008875 putative active site [active] 349101008876 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 349101008877 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 349101008878 FeS/SAM binding site; other site 349101008879 HemN C-terminal domain; Region: HemN_C; pfam06969 349101008880 Protein of unknown function (DUF454); Region: DUF454; cl01063 349101008881 ParB-like partition proteins; Region: parB_part; TIGR00180 349101008882 ParB-like nuclease domain; Region: ParBc; cl02129 349101008883 KorB domain; Region: KorB; pfam08535 349101008884 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 349101008885 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 349101008886 P-loop; other site 349101008887 Magnesium ion binding site [ion binding]; other site 349101008888 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 349101008889 Magnesium ion binding site [ion binding]; other site 349101008890 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; cl16911 349101008891 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 349101008892 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101008893 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101008894 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 349101008895 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 349101008896 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 349101008897 trmE is a tRNA modification GTPase; Region: trmE; cd04164 349101008898 G1 box; other site 349101008899 GTP/Mg2+ binding site [chemical binding]; other site 349101008900 Switch I region; other site 349101008901 G2 box; other site 349101008902 Switch II region; other site 349101008903 G3 box; other site 349101008904 G4 box; other site 349101008905 G5 box; other site 349101008906 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 349101008907 transcription termination factor Rho; Provisional; Region: rho; PRK09376 349101008908 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 349101008909 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 349101008910 RNA binding site [nucleotide binding]; other site 349101008911 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 349101008912 multimer interface [polypeptide binding]; other site 349101008913 Walker A motif; other site 349101008914 ATP binding site [chemical binding]; other site 349101008915 Walker B motif; other site 349101008916 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 349101008917 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 349101008918 active site 349101008919 dimer interface [polypeptide binding]; other site 349101008920 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 349101008921 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 349101008922 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 349101008923 shikimate binding site; other site 349101008924 NAD(P) binding site [chemical binding]; other site 349101008925 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 349101008926 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 349101008927 CoA-binding site [chemical binding]; other site 349101008928 ATP-binding [chemical binding]; other site 349101008929 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 349101008930 active site 349101008931 catalytic site [active] 349101008932 substrate binding site [chemical binding]; other site 349101008933 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 349101008934 SecA binding site; other site 349101008935 Preprotein binding site; other site 349101008936 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 349101008937 Tim44-like domain; Region: Tim44; cl09208 349101008938 MltA specific insert domain; Region: MltA; cl08398 349101008939 3D domain; Region: 3D; cl01439 349101008940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 349101008941 Smr domain; Region: Smr; cl02619 349101008942 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_13; cd08354 349101008943 putative metal binding site [ion binding]; other site 349101008944 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349101008945 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349101008946 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349101008947 DNA binding site [nucleotide binding] 349101008948 domain linker motif; other site 349101008949 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 349101008950 dimerization interface [polypeptide binding]; other site 349101008951 ligand binding site [chemical binding]; other site 349101008952 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 349101008953 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 349101008954 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349101008955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101008956 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 349101008957 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 349101008958 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 349101008959 Walker A/P-loop; other site 349101008960 ATP binding site [chemical binding]; other site 349101008961 Q-loop/lid; other site 349101008962 ABC transporter signature motif; other site 349101008963 Walker B; other site 349101008964 D-loop; other site 349101008965 H-loop/switch region; other site 349101008966 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 349101008967 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 349101008968 TM-ABC transporter signature motif; other site 349101008969 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 349101008970 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 349101008971 putative ligand binding site [chemical binding]; other site 349101008972 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 349101008973 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 349101008974 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 349101008975 FMN binding site [chemical binding]; other site 349101008976 substrate binding site [chemical binding]; other site 349101008977 putative catalytic residue [active] 349101008978 acetate kinase; Region: ackA; TIGR00016 349101008979 Acetokinase family; Region: Acetate_kinase; cl01029 349101008980 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 349101008981 (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 349101008982 dimer interaction site [polypeptide binding]; other site 349101008983 substrate-binding tunnel; other site 349101008984 active site 349101008985 catalytic site [active] 349101008986 substrate binding site [chemical binding]; other site 349101008987 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 349101008988 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 349101008989 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101008990 NAD(P) binding site [chemical binding]; other site 349101008991 active site 349101008992 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 349101008993 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 349101008994 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 349101008995 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 349101008996 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 349101008997 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 349101008998 Sensors of blue-light using FAD; Region: BLUF; cl04855 349101008999 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 349101009000 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 349101009001 active site 349101009002 phosphorylation site [posttranslational modification] 349101009003 intermolecular recognition site; other site 349101009004 dimerization interface [polypeptide binding]; other site 349101009005 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 349101009006 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 349101009007 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349101009008 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 349101009009 K+-transporting ATPase, c chain; Region: KdpC; cl00944 349101009010 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 349101009011 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 349101009012 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 349101009013 Ligand Binding Site [chemical binding]; other site 349101009014 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 349101009015 GAF domain; Region: GAF; cl15785 349101009016 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 349101009017 dimer interface [polypeptide binding]; other site 349101009018 phosphorylation site [posttranslational modification] 349101009019 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 349101009020 ATP binding site [chemical binding]; other site 349101009021 Mg2+ binding site [ion binding]; other site 349101009022 G-X-G motif; other site 349101009023 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 349101009024 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 349101009025 active site 349101009026 phosphorylation site [posttranslational modification] 349101009027 intermolecular recognition site; other site 349101009028 dimerization interface [polypeptide binding]; other site 349101009029 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 349101009030 DNA binding site [nucleotide binding] 349101009031 CsbD-like; Region: CsbD; cl15799 349101009032 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 349101009033 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 349101009034 Histidine kinase; Region: HisKA_2; cl06527 349101009035 RNA polymerase sigma factor; Provisional; Region: PRK12546 349101009036 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349101009037 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 349101009038 DNA binding residues [nucleotide binding] 349101009039 two-component response regulator; Provisional; Region: PRK09191 349101009040 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 349101009041 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 349101009042 active site 349101009043 phosphorylation site [posttranslational modification] 349101009044 intermolecular recognition site; other site 349101009045 dimerization interface [polypeptide binding]; other site 349101009046 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 349101009047 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349101009048 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 349101009049 ligand binding site [chemical binding]; other site 349101009050 flexible hinge region; other site 349101009051 Helix-turn-helix domains; Region: HTH; cl00088 349101009052 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 349101009053 dimerization interface [polypeptide binding]; other site 349101009054 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 349101009055 putative active cleft [active] 349101009056 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 349101009057 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 349101009058 motif II; other site 349101009059 haloacid dehalogenase-like hydrolase family protein; Region: PLN02779 349101009060 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 349101009061 motif II; other site 349101009062 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 349101009063 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 349101009064 Walker A motif; other site 349101009065 ATP binding site [chemical binding]; other site 349101009066 Walker B motif; other site 349101009067 arginine finger; other site 349101009068 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 349101009069 multimerization interface [polypeptide binding]; other site 349101009070 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 349101009071 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 349101009072 homodimer interface [polypeptide binding]; other site 349101009073 active site 349101009074 heterodimer interface [polypeptide binding]; other site 349101009075 catalytic residue [active] 349101009076 metal binding site [ion binding]; metal-binding site 349101009077 hypothetical protein; Provisional; Region: PRK08185 349101009078 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 349101009079 intersubunit interface [polypeptide binding]; other site 349101009080 active site 349101009081 zinc binding site [ion binding]; other site 349101009082 Na+ binding site [ion binding]; other site 349101009083 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101009084 active site 349101009085 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 349101009086 AMP binding site [chemical binding]; other site 349101009087 metal binding site [ion binding]; metal-binding site 349101009088 active site 349101009089 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349101009090 Helix-turn-helix domains; Region: HTH; cl00088 349101009091 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101009092 dimerization interface [polypeptide binding]; other site 349101009093 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 349101009094 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 349101009095 Walker A/P-loop; other site 349101009096 ATP binding site [chemical binding]; other site 349101009097 Q-loop/lid; other site 349101009098 ABC transporter signature motif; other site 349101009099 Walker B; other site 349101009100 D-loop; other site 349101009101 H-loop/switch region; other site 349101009102 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 349101009103 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 349101009104 Walker A/P-loop; other site 349101009105 ATP binding site [chemical binding]; other site 349101009106 Q-loop/lid; other site 349101009107 ABC transporter signature motif; other site 349101009108 Walker B; other site 349101009109 D-loop; other site 349101009110 H-loop/switch region; other site 349101009111 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 349101009112 TM-ABC transporter signature motif; other site 349101009113 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 349101009114 TM-ABC transporter signature motif; other site 349101009115 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 349101009116 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 349101009117 ligand binding site [chemical binding]; other site 349101009118 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101009119 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349101009120 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 349101009121 tetrameric interface [polypeptide binding]; other site 349101009122 NAD binding site [chemical binding]; other site 349101009123 catalytic residues [active] 349101009124 Acyl transferase domain; Region: Acyl_transf_1; cl08282 349101009125 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 349101009126 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 349101009127 tetramer interface [polypeptide binding]; other site 349101009128 TPP-binding site [chemical binding]; other site 349101009129 heterodimer interface [polypeptide binding]; other site 349101009130 phosphorylation loop region [posttranslational modification] 349101009131 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 349101009132 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 349101009133 alpha subunit interface [polypeptide binding]; other site 349101009134 TPP binding site [chemical binding]; other site 349101009135 heterodimer interface [polypeptide binding]; other site 349101009136 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349101009137 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 349101009138 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 349101009139 FAD binding site [chemical binding]; other site 349101009140 substrate binding pocket [chemical binding]; other site 349101009141 catalytic base [active] 349101009142 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 349101009143 Helix-turn-helix domains; Region: HTH; cl00088 349101009144 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101009145 dimerization interface [polypeptide binding]; other site 349101009146 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 349101009147 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 349101009148 active site 349101009149 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 349101009150 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 349101009151 TPR motif; other site 349101009152 binding surface 349101009153 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 349101009154 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 349101009155 active site 349101009156 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 349101009157 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 349101009158 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 349101009159 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 349101009160 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 349101009161 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 349101009162 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 349101009163 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 349101009164 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 349101009165 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 349101009166 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 349101009167 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 349101009168 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 349101009169 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 349101009170 PAS domain; Region: PAS_9; pfam13426 349101009171 putative active site [active] 349101009172 heme pocket [chemical binding]; other site 349101009173 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 349101009174 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 349101009175 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 349101009176 putative active site [active] 349101009177 heme pocket [chemical binding]; other site 349101009178 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349101009179 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 349101009180 dimer interface [polypeptide binding]; other site 349101009181 phosphorylation site [posttranslational modification] 349101009182 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 349101009183 ATP binding site [chemical binding]; other site 349101009184 Mg2+ binding site [ion binding]; other site 349101009185 G-X-G motif; other site 349101009186 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 349101009187 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 349101009188 active site 349101009189 phosphorylation site [posttranslational modification] 349101009190 intermolecular recognition site; other site 349101009191 dimerization interface [polypeptide binding]; other site 349101009192 Response regulator receiver domain; Region: Response_reg; pfam00072 349101009193 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 349101009194 active site 349101009195 phosphorylation site [posttranslational modification] 349101009196 intermolecular recognition site; other site 349101009197 dimerization interface [polypeptide binding]; other site 349101009198 HTH DNA binding domain; Region: HTH_13; pfam11972 349101009199 FliP family; Region: FliP; cl00593 349101009200 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 349101009201 Flagellar biosynthesis/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliH; COG1317 349101009202 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 349101009203 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 349101009204 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 349101009205 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 349101009206 MgtE intracellular N domain; Region: MgtE_N; cl15244 349101009207 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 349101009208 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 349101009209 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 349101009210 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 349101009211 FHIPEP family; Region: FHIPEP; pfam00771 349101009212 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 349101009213 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 349101009214 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 349101009215 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 349101009216 Flagellar L-ring protein; Region: FlgH; cl00905 349101009217 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 349101009218 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 349101009219 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 349101009220 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 349101009221 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12690 349101009222 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 349101009223 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 349101009224 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 349101009225 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12632 349101009226 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 349101009227 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 349101009228 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12627 349101009229 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 349101009230 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 349101009231 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 349101009232 heme binding site [chemical binding]; other site 349101009233 ferroxidase pore; other site 349101009234 ferroxidase diiron center [ion binding]; other site 349101009235 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 349101009236 PAS domain; Region: PAS_9; pfam13426 349101009237 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349101009238 metal binding site [ion binding]; metal-binding site 349101009239 active site 349101009240 I-site; other site 349101009241 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 349101009242 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 349101009243 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 349101009244 substrate binding pocket [chemical binding]; other site 349101009245 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 349101009246 B12 binding site [chemical binding]; other site 349101009247 cobalt ligand [ion binding]; other site 349101009248 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 349101009249 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 349101009250 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 349101009251 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 349101009252 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; cl16911 349101009253 Uncharacterized conserved protein [Function unknown]; Region: COG4748 349101009254 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 349101009255 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 349101009256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101009257 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 349101009258 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 349101009259 dimer interface [polypeptide binding]; other site 349101009260 putative tRNA-binding site [nucleotide binding]; other site 349101009261 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 349101009262 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101009263 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 349101009264 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349101009265 metal binding site [ion binding]; metal-binding site 349101009266 active site 349101009267 I-site; other site 349101009268 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 349101009269 Amidase; Region: Amidase; cl11426 349101009270 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349101009271 DctM-like transporters; Region: DctM; pfam06808 349101009272 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 349101009273 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349101009274 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 349101009275 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 349101009276 FtsX-like permease family; Region: FtsX; cl15850 349101009277 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 349101009278 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 349101009279 Walker A/P-loop; other site 349101009280 ATP binding site [chemical binding]; other site 349101009281 Q-loop/lid; other site 349101009282 ABC transporter signature motif; other site 349101009283 Walker B; other site 349101009284 D-loop; other site 349101009285 H-loop/switch region; other site 349101009286 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349101009287 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349101009288 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349101009289 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 349101009290 trimer interface [polypeptide binding]; other site 349101009291 active site 349101009292 dimer interface [polypeptide binding]; other site 349101009293 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349101009294 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 349101009295 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 349101009296 putative N-terminal domain interface [polypeptide binding]; other site 349101009297 putative dimer interface [polypeptide binding]; other site 349101009298 putative substrate binding pocket (H-site) [chemical binding]; other site 349101009299 RES domain; Region: RES; cl02411 349101009300 Bacterial SH3 domain; Region: SH3_3; cl02551 349101009301 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 349101009302 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 349101009303 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 349101009304 NADP binding site [chemical binding]; other site 349101009305 dimer interface [polypeptide binding]; other site 349101009306 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 349101009307 Putative cyclase; Region: Cyclase; cl00814 349101009308 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 349101009309 putative active site pocket [active] 349101009310 metal binding site [ion binding]; metal-binding site 349101009311 transcriptional activator TtdR; Provisional; Region: PRK09801 349101009312 Helix-turn-helix domains; Region: HTH; cl00088 349101009313 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 349101009314 putative effector binding pocket; other site 349101009315 putative dimerization interface [polypeptide binding]; other site 349101009316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 349101009317 NMT1-like family; Region: NMT1_2; cl15260 349101009318 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 349101009319 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 349101009320 tartrate dehydrogenase; Provisional; Region: PRK08194 349101009321 tartrate dehydrogenase; Provisional; Region: PRK08194 349101009322 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 349101009323 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 349101009324 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349101009325 Walker A/P-loop; other site 349101009326 ATP binding site [chemical binding]; other site 349101009327 Q-loop/lid; other site 349101009328 ABC transporter signature motif; other site 349101009329 Walker B; other site 349101009330 D-loop; other site 349101009331 H-loop/switch region; other site 349101009332 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 349101009333 dimer interface [polypeptide binding]; other site 349101009334 putative PBP binding regions; other site 349101009335 ABC-ATPase subunit interface; other site 349101009336 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 349101009337 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 349101009338 putative ligand binding residues [chemical binding]; other site 349101009339 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 349101009340 dimer interface [polypeptide binding]; other site 349101009341 conserved gate region; other site 349101009342 putative PBP binding loops; other site 349101009343 ABC-ATPase subunit interface; other site 349101009344 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 349101009345 dimer interface [polypeptide binding]; other site 349101009346 conserved gate region; other site 349101009347 putative PBP binding loops; other site 349101009348 ABC-ATPase subunit interface; other site 349101009349 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349101009350 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101009351 Walker A/P-loop; other site 349101009352 ATP binding site [chemical binding]; other site 349101009353 Q-loop/lid; other site 349101009354 ABC transporter signature motif; other site 349101009355 Walker B; other site 349101009356 D-loop; other site 349101009357 H-loop/switch region; other site 349101009358 TOBE domain; Region: TOBE_2; cl01440 349101009359 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 349101009360 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101009361 hypothetical protein; Validated; Region: PRK06201 349101009362 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 349101009363 Predicted amidohydrolase [General function prediction only]; Region: COG0388 349101009364 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 349101009365 putative active site [active] 349101009366 catalytic triad [active] 349101009367 dimer interface [polypeptide binding]; other site 349101009368 Helix-turn-helix domains; Region: HTH; cl00088 349101009369 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 349101009370 dimerization interface [polypeptide binding]; other site 349101009371 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349101009372 metal binding site [ion binding]; metal-binding site 349101009373 active site 349101009374 I-site; other site 349101009375 GAF domain; Region: GAF; cl15785 349101009376 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 349101009377 PAS domain; Region: PAS_9; pfam13426 349101009378 putative active site [active] 349101009379 heme pocket [chemical binding]; other site 349101009380 PAS domain; Region: PAS_9; pfam13426 349101009381 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349101009382 metal binding site [ion binding]; metal-binding site 349101009383 active site 349101009384 I-site; other site 349101009385 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 349101009386 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 349101009387 putative active site [active] 349101009388 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 349101009389 Transcriptional regulators [Transcription]; Region: FadR; COG2186 349101009390 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101009391 DNA-binding site [nucleotide binding]; DNA binding site 349101009392 FCD domain; Region: FCD; cl11656 349101009393 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 349101009394 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 349101009395 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 349101009396 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101009397 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 349101009398 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 349101009399 inhibitor site; inhibition site 349101009400 active site 349101009401 dimer interface [polypeptide binding]; other site 349101009402 catalytic residue [active] 349101009403 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 349101009404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 349101009405 NMT1-like family; Region: NMT1_2; cl15260 349101009406 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 349101009407 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 349101009408 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 349101009409 active site 349101009410 NAD binding site [chemical binding]; other site 349101009411 metal binding site [ion binding]; metal-binding site 349101009412 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 349101009413 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349101009414 Walker A/P-loop; other site 349101009415 ATP binding site [chemical binding]; other site 349101009416 Q-loop/lid; other site 349101009417 ABC transporter signature motif; other site 349101009418 Walker B; other site 349101009419 D-loop; other site 349101009420 H-loop/switch region; other site 349101009421 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 349101009422 dimer interface [polypeptide binding]; other site 349101009423 putative PBP binding regions; other site 349101009424 ABC-ATPase subunit interface; other site 349101009425 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 349101009426 ABC-ATPase subunit interface; other site 349101009427 dimer interface [polypeptide binding]; other site 349101009428 putative PBP binding regions; other site 349101009429 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 349101009430 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 349101009431 intersubunit interface [polypeptide binding]; other site 349101009432 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 349101009433 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 349101009434 N-terminal plug; other site 349101009435 ligand-binding site [chemical binding]; other site 349101009436 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349101009437 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349101009438 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349101009439 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 349101009440 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 349101009441 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349101009442 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349101009443 dimer interface [polypeptide binding]; other site 349101009444 putative CheW interface [polypeptide binding]; other site 349101009445 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 349101009446 putative catalytic site [active] 349101009447 putative phosphate binding site [ion binding]; other site 349101009448 active site 349101009449 metal binding site A [ion binding]; metal-binding site 349101009450 DNA binding site [nucleotide binding] 349101009451 putative AP binding site [nucleotide binding]; other site 349101009452 putative metal binding site B [ion binding]; other site 349101009453 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101009454 NAD(P) binding site [chemical binding]; other site 349101009455 active site 349101009456 Protein of unknown function (DUF1190); Region: DUF1190; cl10031 349101009457 Circularly permuted ATP-grasp type 2; Region: CP_ATPgrasp_2; cl00503 349101009458 Uncharacterized bacterial family of heme peroxidases; Region: An_peroxidase_bacterial_1; cd09819 349101009459 putative heme binding site [chemical binding]; other site 349101009460 putative substrate binding site [chemical binding]; other site 349101009461 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 349101009462 active site 349101009463 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 349101009464 active site 349101009465 catalytic triad [active] 349101009466 oxyanion hole [active] 349101009467 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 349101009468 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 349101009469 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 349101009470 active site 349101009471 phosphorylation site [posttranslational modification] 349101009472 intermolecular recognition site; other site 349101009473 dimerization interface [polypeptide binding]; other site 349101009474 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 349101009475 DNA binding site [nucleotide binding] 349101009476 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 349101009477 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 349101009478 dimer interface [polypeptide binding]; other site 349101009479 phosphorylation site [posttranslational modification] 349101009480 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 349101009481 ATP binding site [chemical binding]; other site 349101009482 Mg2+ binding site [ion binding]; other site 349101009483 G-X-G motif; other site 349101009484 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349101009485 dimer interface [polypeptide binding]; other site 349101009486 putative CheW interface [polypeptide binding]; other site 349101009487 nickel responsive regulator; Provisional; Region: PRK02967 349101009488 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 349101009489 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 349101009490 Protein of unknown function (DUF3140); Region: DUF3140; pfam11338 349101009491 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349101009492 Helix-turn-helix domains; Region: HTH; cl00088 349101009493 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 349101009494 putative dimerization interface [polypeptide binding]; other site 349101009495 aspartate aminotransferase; Provisional; Region: PRK06207 349101009496 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 349101009497 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101009498 homodimer interface [polypeptide binding]; other site 349101009499 catalytic residue [active] 349101009500 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 349101009501 homotrimer interaction site [polypeptide binding]; other site 349101009502 putative active site [active] 349101009503 aspartate aminotransferase; Provisional; Region: PRK05764 349101009504 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 349101009505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101009506 homodimer interface [polypeptide binding]; other site 349101009507 catalytic residue [active] 349101009508 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 349101009509 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 349101009510 putative NAD(P) binding site [chemical binding]; other site 349101009511 putative active site [active] 349101009512 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 349101009513 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 349101009514 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101009515 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 349101009516 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 349101009517 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 349101009518 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 349101009519 active site 349101009520 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349101009521 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101009522 DNA-binding site [nucleotide binding]; DNA binding site 349101009523 allantoate amidohydrolase; Reviewed; Region: PRK12890 349101009524 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 349101009525 active site 349101009526 metal binding site [ion binding]; metal-binding site 349101009527 dimer interface [polypeptide binding]; other site 349101009528 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 349101009529 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101009530 Transcriptional regulators [Transcription]; Region: FadR; COG2186 349101009531 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101009532 DNA-binding site [nucleotide binding]; DNA binding site 349101009533 FCD domain; Region: FCD; cl11656 349101009534 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 349101009535 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 349101009536 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 349101009537 DctM-like transporters; Region: DctM; pfam06808 349101009538 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349101009539 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 349101009540 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 349101009541 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349101009542 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 349101009543 putative active site [active] 349101009544 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 349101009545 homodimer interface [polypeptide binding]; other site 349101009546 substrate-cofactor binding pocket; other site 349101009547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101009548 catalytic residue [active] 349101009549 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 349101009550 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 349101009551 inhibitor site; inhibition site 349101009552 active site 349101009553 dimer interface [polypeptide binding]; other site 349101009554 catalytic residue [active] 349101009555 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349101009556 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 349101009557 substrate binding pocket [chemical binding]; other site 349101009558 membrane-bound complex binding site; other site 349101009559 hinge residues; other site 349101009560 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349101009561 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 349101009562 Walker A/P-loop; other site 349101009563 ATP binding site [chemical binding]; other site 349101009564 Q-loop/lid; other site 349101009565 ABC transporter signature motif; other site 349101009566 Walker B; other site 349101009567 D-loop; other site 349101009568 H-loop/switch region; other site 349101009569 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349101009570 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349101009571 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 349101009572 dimer interface [polypeptide binding]; other site 349101009573 conserved gate region; other site 349101009574 ABC-ATPase subunit interface; other site 349101009575 N-carbamyl-D-amino acid amidohydrolase (DCase, class 6 nitrilases); Region: DCase; cd07569 349101009576 Predicted amidohydrolase [General function prediction only]; Region: COG0388 349101009577 tetramer interface [polypeptide binding]; other site 349101009578 active site 349101009579 catalytic triad [active] 349101009580 dimer interface [polypeptide binding]; other site 349101009581 dihydropyrimidinase; Provisional; Region: PRK13404 349101009582 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 349101009583 tetramer interface [polypeptide binding]; other site 349101009584 active site 349101009585 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 349101009586 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 349101009587 Helix-turn-helix domains; Region: HTH; cl00088 349101009588 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 349101009589 putative dimerization interface [polypeptide binding]; other site 349101009590 Flavin Reductases; Region: FlaRed; cl00801 349101009591 conserved hypothetical protein; Region: TIGR02270 349101009592 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 349101009593 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 349101009594 PAAR motif; Region: PAAR_motif; cl15808 349101009595 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 349101009596 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 349101009597 Walker A motif; other site 349101009598 ATP binding site [chemical binding]; other site 349101009599 Walker B motif; other site 349101009600 arginine finger; other site 349101009601 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 349101009602 Walker A motif; other site 349101009603 ATP binding site [chemical binding]; other site 349101009604 Walker B motif; other site 349101009605 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 349101009606 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 349101009607 Catalytic domain of Protein Kinases; Region: PKc; cd00180 349101009608 active site 349101009609 ATP binding site [chemical binding]; other site 349101009610 substrate binding site [chemical binding]; other site 349101009611 activation loop (A-loop); other site 349101009612 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 349101009613 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 349101009614 Protein of unknown function (DUF770); Region: DUF770; cl01402 349101009615 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 349101009616 Protein of unknown function (DUF877); Region: DUF877; pfam05943 349101009617 Protein of unknown function (DUF796); Region: DUF796; cl01226 349101009618 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 349101009619 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 349101009620 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 349101009621 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 349101009622 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 349101009623 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 349101009624 phosphopeptide binding site; other site 349101009625 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 349101009626 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 349101009627 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 349101009628 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 349101009629 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349101009630 ligand binding site [chemical binding]; other site 349101009631 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 349101009632 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 349101009633 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 349101009634 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 349101009635 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 349101009636 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 349101009637 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 349101009638 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 349101009639 Flagellin protein; Region: FliC; pfam12445 349101009640 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 349101009641 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 349101009642 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 349101009643 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 349101009644 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 349101009645 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 349101009646 Protein phosphatase 2C; Region: PP2C; pfam00481 349101009647 active site 349101009648 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 349101009649 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349101009650 ligand binding site [chemical binding]; other site 349101009651 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 349101009652 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 349101009653 Tetratricopeptide repeat; Region: TPR_12; pfam13424 349101009654 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 349101009655 Sel1 repeat; Region: Sel1; cl02723 349101009656 Sel1 repeat; Region: Sel1; cl02723 349101009657 Sel1 repeat; Region: Sel1; cl02723 349101009658 Sel1 repeat; Region: Sel1; cl02723 349101009659 short chain dehydrogenase; Validated; Region: PRK08324 349101009660 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 349101009661 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 349101009662 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 349101009663 ligand binding site [chemical binding]; other site 349101009664 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 349101009665 TM-ABC transporter signature motif; other site 349101009666 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 349101009667 TM-ABC transporter signature motif; other site 349101009668 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional; Region: PRK15439 349101009669 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 349101009670 Walker A/P-loop; other site 349101009671 ATP binding site [chemical binding]; other site 349101009672 Q-loop/lid; other site 349101009673 ABC transporter signature motif; other site 349101009674 Walker B; other site 349101009675 D-loop; other site 349101009676 H-loop/switch region; other site 349101009677 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 349101009678 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 349101009679 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 349101009680 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 349101009681 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 349101009682 Autoinducer-2 kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 349101009683 putative N- and C-terminal domain interface [polypeptide binding]; other site 349101009684 putative active site [active] 349101009685 putative MgATP binding site [chemical binding]; other site 349101009686 catalytic site [active] 349101009687 metal binding site [ion binding]; metal-binding site 349101009688 putative carbohydrate binding site [chemical binding]; other site 349101009689 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 349101009690 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 349101009691 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 349101009692 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 349101009693 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 349101009694 Predicted membrane protein [Function unknown]; Region: COG3212 349101009695 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 349101009696 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 349101009697 active site 349101009698 phosphorylation site [posttranslational modification] 349101009699 intermolecular recognition site; other site 349101009700 dimerization interface [polypeptide binding]; other site 349101009701 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 349101009702 DNA binding site [nucleotide binding] 349101009703 sensor protein PhoQ; Provisional; Region: PRK10815 349101009704 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 349101009705 ATP binding site [chemical binding]; other site 349101009706 Mg2+ binding site [ion binding]; other site 349101009707 G-X-G motif; other site 349101009708 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 349101009709 GAF domain; Region: GAF; cl15785 349101009710 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349101009711 metal binding site [ion binding]; metal-binding site 349101009712 active site 349101009713 I-site; other site 349101009714 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 349101009715 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 349101009716 conserved cys residue [active] 349101009717 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 349101009718 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349101009719 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 349101009720 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101009721 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349101009722 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101009723 Walker A/P-loop; other site 349101009724 ATP binding site [chemical binding]; other site 349101009725 Q-loop/lid; other site 349101009726 ABC transporter signature motif; other site 349101009727 Walker B; other site 349101009728 D-loop; other site 349101009729 H-loop/switch region; other site 349101009730 TOBE domain; Region: TOBE_2; cl01440 349101009731 sulfate transport protein; Provisional; Region: cysT; CHL00187 349101009732 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 349101009733 dimer interface [polypeptide binding]; other site 349101009734 conserved gate region; other site 349101009735 putative PBP binding loops; other site 349101009736 ABC-ATPase subunit interface; other site 349101009737 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 349101009738 dimer interface [polypeptide binding]; other site 349101009739 conserved gate region; other site 349101009740 putative PBP binding loops; other site 349101009741 ABC-ATPase subunit interface; other site 349101009742 proline racemase; Provisional; Region: PRK13969 349101009743 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 349101009744 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 349101009745 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101009746 Walker A/P-loop; other site 349101009747 ATP binding site [chemical binding]; other site 349101009748 Q-loop/lid; other site 349101009749 ABC transporter signature motif; other site 349101009750 Walker B; other site 349101009751 D-loop; other site 349101009752 H-loop/switch region; other site 349101009753 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349101009754 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101009755 Walker A/P-loop; other site 349101009756 ATP binding site [chemical binding]; other site 349101009757 Q-loop/lid; other site 349101009758 ABC transporter signature motif; other site 349101009759 Walker B; other site 349101009760 D-loop; other site 349101009761 H-loop/switch region; other site 349101009762 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349101009763 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 349101009764 dimer interface [polypeptide binding]; other site 349101009765 conserved gate region; other site 349101009766 putative PBP binding loops; other site 349101009767 ABC-ATPase subunit interface; other site 349101009768 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 349101009769 dimer interface [polypeptide binding]; other site 349101009770 conserved gate region; other site 349101009771 ABC-ATPase subunit interface; other site 349101009772 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_17; cd08503 349101009773 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 349101009774 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_17; cd08503 349101009775 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 349101009776 putative amidase; Provisional; Region: PRK06169 349101009777 Amidase; Region: Amidase; cl11426 349101009778 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 349101009779 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349101009780 Helix-turn-helix domains; Region: HTH; cl00088 349101009781 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 349101009782 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 349101009783 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 349101009784 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101009785 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 349101009786 AMP-binding enzyme; Region: AMP-binding; cl15778 349101009787 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349101009788 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 349101009789 NAD(P) binding site [chemical binding]; other site 349101009790 catalytic residues [active] 349101009791 hypothetical protein; Provisional; Region: PRK07036 349101009792 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 349101009793 inhibitor-cofactor binding pocket; inhibition site 349101009794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101009795 catalytic residue [active] 349101009796 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 349101009797 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 349101009798 substrate binding site [chemical binding]; other site 349101009799 oxyanion hole (OAH) forming residues; other site 349101009800 trimer interface [polypeptide binding]; other site 349101009801 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101009802 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 349101009803 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 349101009804 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 349101009805 dimer interface [polypeptide binding]; other site 349101009806 active site 349101009807 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 349101009808 Prostaglandin dehydrogenases; Region: PGDH; cd05288 349101009809 NAD(P) binding site [chemical binding]; other site 349101009810 substrate binding site [chemical binding]; other site 349101009811 dimer interface [polypeptide binding]; other site 349101009812 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 349101009813 VCBS repeat; Region: VCBS_repeat; TIGR01965 349101009814 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 349101009815 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 349101009816 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 349101009817 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 349101009818 Helix-turn-helix domains; Region: HTH; cl00088 349101009819 Winged helix-turn helix; Region: HTH_29; pfam13551 349101009820 Helix-turn-helix domains; Region: HTH; cl00088 349101009821 Integrase core domain; Region: rve; cl01316 349101009822 Integrase core domain; Region: rve_3; cl15866 349101009823 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 349101009824 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101009825 ABC transporter signature motif; other site 349101009826 Walker B; other site 349101009827 D-loop; other site 349101009828 H-loop/switch region; other site 349101009829 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 349101009830 Helix-turn-helix domains; Region: HTH; cl00088 349101009831 Winged helix-turn helix; Region: HTH_29; pfam13551 349101009832 Helix-turn-helix domains; Region: HTH; cl00088 349101009833 Integrase core domain; Region: rve; cl01316 349101009834 Integrase core domain; Region: rve_3; cl15866 349101009835 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_b3; cd09205 349101009836 PLD-like domain; Region: PLDc_2; pfam13091 349101009837 putative homodimer interface [polypeptide binding]; other site 349101009838 putative active site [active] 349101009839 catalytic site [active] 349101009840 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 349101009841 ATP binding site [chemical binding]; other site 349101009842 putative Mg++ binding site [ion binding]; other site 349101009843 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 349101009844 nucleotide binding region [chemical binding]; other site 349101009845 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 349101009846 TniQ; Region: TniQ; pfam06527 349101009847 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 349101009848 Helix-turn-helix domains; Region: HTH; cl00088 349101009849 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 349101009850 Domain of unknown function DUF87; Region: DUF87; pfam01935 349101009851 HerA helicase [Replication, recombination, and repair]; Region: COG0433 349101009852 TniQ; Region: TniQ; pfam06527 349101009853 AAA domain; Region: AAA_22; pfam13401 349101009854 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 349101009855 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 349101009856 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101009857 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101009858 Family description; Region: UvrD_C_2; cl15862 349101009859 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 349101009860 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 349101009861 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 349101009862 Helix-turn-helix domains; Region: HTH; cl00088 349101009863 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 349101009864 Family description; Region: UvrD_C_2; cl15862 349101009865 Domain of unknown function DUF87; Region: DUF87; pfam01935 349101009866 HerA helicase [Replication, recombination, and repair]; Region: COG0433 349101009867 Integrase core domain; Region: rve; cl01316 349101009868 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 349101009869 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101009870 AAA domain; Region: AAA_22; pfam13401 349101009871 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101009872 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101009873 Uncharacterized conserved protein [Function unknown]; Region: COG4938 349101009874 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 349101009875 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 349101009876 Transposase domain (DUF772); Region: DUF772; pfam05598 349101009877 DDE superfamily endonuclease; Region: DDE_4; cl15789 349101009878 CHAT domain; Region: CHAT; pfam12770 349101009879 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 349101009880 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 349101009881 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 349101009882 ATP binding site [chemical binding]; other site 349101009883 putative Mg++ binding site [ion binding]; other site 349101009884 HsdM N-terminal domain; Region: HsdM_N; pfam12161 349101009885 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 349101009886 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; cl16911 349101009887 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 349101009888 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 349101009889 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 349101009890 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 349101009891 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 349101009892 TniQ; Region: TniQ; pfam06527 349101009893 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 349101009894 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 349101009895 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 349101009896 active site 349101009897 dimer interface [polypeptide binding]; other site 349101009898 effector binding site; other site 349101009899 TSCPD domain; Region: TSCPD; cl14834 349101009900 Protein of unknown function (DUF1489); Region: DUF1489; cl11570 349101009901 ATP phosphoribosyltransferase; Region: HisG; cl15266 349101009902 histidyl-tRNA synthetase; Region: hisS; TIGR00442 349101009903 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 349101009904 dimer interface [polypeptide binding]; other site 349101009905 motif 1; other site 349101009906 motif 2; other site 349101009907 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 349101009908 motif 3; other site 349101009909 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 349101009910 anticodon binding site; other site 349101009911 SlyX; Region: SlyX; cl01090 349101009912 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 349101009913 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 349101009914 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 349101009915 generic binding surface II; other site 349101009916 generic binding surface I; other site 349101009917 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 349101009918 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 349101009919 catalytic loop [active] 349101009920 iron binding site [ion binding]; other site 349101009921 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 349101009922 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 349101009923 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 349101009924 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 349101009925 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 349101009926 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 349101009927 XdhC Rossmann domain; Region: XdhC_C; pfam13478 349101009928 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 349101009929 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 349101009930 Walker A/P-loop; other site 349101009931 ATP binding site [chemical binding]; other site 349101009932 Q-loop/lid; other site 349101009933 ABC transporter signature motif; other site 349101009934 Walker B; other site 349101009935 D-loop; other site 349101009936 H-loop/switch region; other site 349101009937 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 349101009938 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 349101009939 TM-ABC transporter signature motif; other site 349101009940 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 349101009941 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 349101009942 TM-ABC transporter signature motif; other site 349101009943 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 349101009944 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 349101009945 putative ligand binding site [chemical binding]; other site 349101009946 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 349101009947 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 349101009948 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; cl16911 349101009949 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 349101009950 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 349101009951 active site 349101009952 FAD dependent oxidoreductase; Region: DAO; pfam01266 349101009953 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101009954 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 349101009955 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 349101009956 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 349101009957 ABC-ATPase subunit interface; other site 349101009958 dimer interface [polypeptide binding]; other site 349101009959 putative PBP binding regions; other site 349101009960 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 349101009961 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 349101009962 Helix-turn-helix domains; Region: HTH; cl00088 349101009963 metal binding site 2 [ion binding]; metal-binding site 349101009964 putative DNA binding helix; other site 349101009965 metal binding site 1 [ion binding]; metal-binding site 349101009966 dimer interface [polypeptide binding]; other site 349101009967 structural Zn2+ binding site [ion binding]; other site 349101009968 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 349101009969 intersubunit interface [polypeptide binding]; other site 349101009970 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 349101009971 metal binding site [ion binding]; metal-binding site 349101009972 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 349101009973 active site 349101009974 catalytic residues [active] 349101009975 Gas vesicle protein; Region: Gas_vesicle; cl02954 349101009976 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 349101009977 active sites [active] 349101009978 tetramer interface [polypeptide binding]; other site 349101009979 Gas vesicle protein K; Region: GvpK; pfam05121 349101009980 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 349101009981 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 349101009982 Gas vesicle protein G; Region: GvpG; pfam05120 349101009983 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 349101009984 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 349101009985 putative dimer interface [polypeptide binding]; other site 349101009986 Gas vesicle protein; Region: Gas_vesicle; cl02954 349101009987 Gas vesicle synthesis protein GvpO; Region: GvpO; pfam05800 349101009988 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 349101009989 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 349101009990 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101009991 Predicted membrane protein [Function unknown]; Region: COG3748 349101009992 Protein of unknown function (DUF989); Region: DUF989; pfam06181 349101009993 Cytochrome c; Region: Cytochrom_C; cl11414 349101009994 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 349101009995 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 349101009996 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 349101009997 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101009998 catalytic residue [active] 349101009999 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349101010000 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 349101010001 active site 349101010002 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 349101010003 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 349101010004 IHF dimer interface [polypeptide binding]; other site 349101010005 IHF - DNA interface [nucleotide binding]; other site 349101010006 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 349101010007 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 349101010008 RNA binding site [nucleotide binding]; other site 349101010009 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 349101010010 RNA binding site [nucleotide binding]; other site 349101010011 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 349101010012 RNA binding site [nucleotide binding]; other site 349101010013 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 349101010014 RNA binding site [nucleotide binding]; other site 349101010015 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 349101010016 RNA binding site [nucleotide binding]; other site 349101010017 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 349101010018 RNA binding site [nucleotide binding]; other site 349101010019 cytidylate kinase; Provisional; Region: cmk; PRK00023 349101010020 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 349101010021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101010022 CMP-binding site; other site 349101010023 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 349101010024 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 349101010025 hinge; other site 349101010026 active site 349101010027 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; cl16911 349101010028 His-Xaa-Ser repeat protein HxsA; Region: His_Ser_Rich; TIGR03979 349101010029 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 349101010030 S-adenosylmethionine synthetase; Validated; Region: PRK05250 349101010031 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 349101010032 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 349101010033 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 349101010034 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 349101010035 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 349101010036 putative active site [active] 349101010037 catalytic triad [active] 349101010038 putative dimer interface [polypeptide binding]; other site 349101010039 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 349101010040 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 349101010041 Transporter associated domain; Region: CorC_HlyC; cl08393 349101010042 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 349101010043 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 349101010044 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101010045 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 349101010046 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 349101010047 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 349101010048 FeS/SAM binding site; other site 349101010049 TRAM domain; Region: TRAM; cl01282 349101010050 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 349101010051 active site 349101010052 catalytic triad [active] 349101010053 oxyanion hole [active] 349101010054 switch loop; other site 349101010055 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 349101010056 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 349101010057 Walker A/P-loop; other site 349101010058 ATP binding site [chemical binding]; other site 349101010059 Q-loop/lid; other site 349101010060 ABC transporter signature motif; other site 349101010061 Walker B; other site 349101010062 D-loop; other site 349101010063 H-loop/switch region; other site 349101010064 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 349101010065 FtsX-like permease family; Region: FtsX; cl15850 349101010066 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 349101010067 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 349101010068 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 349101010069 active site residue [active] 349101010070 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 349101010071 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349101010072 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 349101010073 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 349101010074 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 349101010075 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 349101010076 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 349101010077 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 349101010078 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 349101010079 active site 349101010080 Int/Topo IB signature motif; other site 349101010081 DNA binding site [nucleotide binding] 349101010082 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; cl16911 349101010083 Uncharacterized conserved protein (DUF2303); Region: DUF2303; cl02338 349101010084 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl16918 349101010085 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; cl16911 349101010086 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cl07055 349101010087 DnaA box-binding interface [nucleotide binding]; other site 349101010088 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 349101010089 AAA domain; Region: AAA_33; pfam13671 349101010090 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 349101010091 Phage Terminase; Region: Terminase_1; pfam03354 349101010092 Phage portal protein; Region: Phage_portal; pfam04860 349101010093 Phage-related protein [Function unknown]; Region: COG4695; cl01923 349101010094 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 349101010095 oligomer interface [polypeptide binding]; other site 349101010096 active site residues [active] 349101010097 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 349101010098 Phage capsid family; Region: Phage_capsid; pfam05065 349101010099 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 349101010100 oligomerization interface [polypeptide binding]; other site 349101010101 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 349101010102 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 349101010103 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 349101010104 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 349101010105 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 349101010106 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 349101010107 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 349101010108 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cd00413 349101010109 active site 349101010110 catalytic residues [active] 349101010111 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 349101010112 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101010113 YcfA-like protein; Region: YcfA; cl00752 349101010114 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 349101010115 active site 349101010116 Int/Topo IB signature motif; other site 349101010117 DNA binding site [nucleotide binding] 349101010118 ParB-like nuclease domain; Region: ParBc; cl02129 349101010119 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 349101010120 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 349101010121 non-specific DNA binding site [nucleotide binding]; other site 349101010122 salt bridge; other site 349101010123 sequence-specific DNA binding site [nucleotide binding]; other site 349101010124 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl16918 349101010125 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 349101010126 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 349101010127 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 349101010128 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 349101010129 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 349101010130 tandem repeat interface [polypeptide binding]; other site 349101010131 oligomer interface [polypeptide binding]; other site 349101010132 active site residues [active] 349101010133 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 349101010134 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 349101010135 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; cl16911 349101010136 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 349101010137 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 349101010138 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 349101010139 ATP binding site [chemical binding]; other site 349101010140 putative Mg++ binding site [ion binding]; other site 349101010141 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101010142 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 349101010143 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 349101010144 ATP binding site [chemical binding]; other site 349101010145 putative Mg++ binding site [ion binding]; other site 349101010146 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 349101010147 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 349101010148 nucleotide binding region [chemical binding]; other site 349101010149 ATP-binding site [chemical binding]; other site 349101010150 Protein of unknown function (DUF3223); Region: DUF3223; pfam11523 349101010151 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 349101010152 additional DNA contacts [nucleotide binding]; other site 349101010153 mismatch recognition site; other site 349101010154 active site 349101010155 zinc binding site [ion binding]; other site 349101010156 DNA intercalation site [nucleotide binding]; other site 349101010157 EcoRII C terminal; Region: EcoRII-C; pfam09019 349101010158 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 349101010159 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 349101010160 cofactor binding site; other site 349101010161 DNA binding site [nucleotide binding] 349101010162 substrate interaction site [chemical binding]; other site 349101010163 topology modulation protein; Reviewed; Region: PRK08118 349101010164 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101010165 active site 349101010166 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 349101010167 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 349101010168 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 349101010169 putative active site [active] 349101010170 catalytic residue [active] 349101010171 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 349101010172 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 349101010173 dimer interface [polypeptide binding]; other site 349101010174 NADP binding site [chemical binding]; other site 349101010175 catalytic residues [active] 349101010176 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 349101010177 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 349101010178 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 349101010179 Predicted amidohydrolase [General function prediction only]; Region: COG0388 349101010180 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 349101010181 active site 349101010182 catalytic triad [active] 349101010183 dimer interface [polypeptide binding]; other site 349101010184 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 349101010185 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349101010186 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349101010187 DctM-like transporters; Region: DctM; pfam06808 349101010188 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 349101010189 Transcriptional regulators [Transcription]; Region: FadR; COG2186 349101010190 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101010191 DNA-binding site [nucleotide binding]; DNA binding site 349101010192 FCD domain; Region: FCD; cl11656 349101010193 Autoinducer binding domain; Region: Autoind_bind; pfam03472 349101010194 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 349101010195 DNA binding residues [nucleotide binding] 349101010196 dimerization interface [polypeptide binding]; other site 349101010197 Fibronectin type III-like domain; Region: Fn3-like; cl15273 349101010198 Fibronectin type III-like domain; Region: Fn3-like; cl15273 349101010199 Fibronectin type III-like domain; Region: Fn3-like; cl15273 349101010200 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 349101010201 Fibronectin type III-like domain; Region: Fn3-like; cl15273 349101010202 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349101010203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101010204 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 349101010205 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 349101010206 DNA interaction; other site 349101010207 Metal-binding active site; metal-binding site 349101010208 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349101010209 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349101010210 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 349101010211 putative PBP binding loops; other site 349101010212 dimer interface [polypeptide binding]; other site 349101010213 ABC-ATPase subunit interface; other site 349101010214 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 349101010215 dimer interface [polypeptide binding]; other site 349101010216 conserved gate region; other site 349101010217 putative PBP binding loops; other site 349101010218 ABC-ATPase subunit interface; other site 349101010219 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349101010220 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101010221 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 349101010222 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 349101010223 substrate binding pocket [chemical binding]; other site 349101010224 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349101010225 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101010226 DNA-binding site [nucleotide binding]; DNA binding site 349101010227 FCD domain; Region: FCD; cl11656 349101010228 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 349101010229 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 349101010230 Walker A/P-loop; other site 349101010231 ATP binding site [chemical binding]; other site 349101010232 Q-loop/lid; other site 349101010233 ABC transporter signature motif; other site 349101010234 Walker B; other site 349101010235 D-loop; other site 349101010236 H-loop/switch region; other site 349101010237 TOBE domain; Region: TOBE_2; cl01440 349101010238 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 349101010239 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 349101010240 FAD binding pocket [chemical binding]; other site 349101010241 FAD binding motif [chemical binding]; other site 349101010242 phosphate binding motif [ion binding]; other site 349101010243 NAD binding pocket [chemical binding]; other site 349101010244 Helix-turn-helix domains; Region: HTH; cl00088 349101010245 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 349101010246 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 349101010247 putative active site [active] 349101010248 putative FMN binding site [chemical binding]; other site 349101010249 putative substrate binding site [chemical binding]; other site 349101010250 putative catalytic residue [active] 349101010251 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101010252 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349101010253 transcriptional regulator TraR; Provisional; Region: PRK13870 349101010254 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 349101010255 DNA binding residues [nucleotide binding] 349101010256 dimerization interface [polypeptide binding]; other site 349101010257 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 349101010258 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349101010259 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349101010260 DNA binding site [nucleotide binding] 349101010261 domain linker motif; other site 349101010262 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_11; cd06293 349101010263 putative dimerization interface [polypeptide binding]; other site 349101010264 putative ligand binding site [chemical binding]; other site 349101010265 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 349101010266 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 349101010267 ligand binding site [chemical binding]; other site 349101010268 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 349101010269 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101010270 Walker A/P-loop; other site 349101010271 ATP binding site [chemical binding]; other site 349101010272 Q-loop/lid; other site 349101010273 ABC transporter signature motif; other site 349101010274 Walker B; other site 349101010275 D-loop; other site 349101010276 H-loop/switch region; other site 349101010277 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 349101010278 TM-ABC transporter signature motif; other site 349101010279 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 349101010280 active site 349101010281 substrate binding pocket [chemical binding]; other site 349101010282 homodimer interaction site [polypeptide binding]; other site 349101010283 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 349101010284 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 349101010285 substrate binding site [chemical binding]; other site 349101010286 dimer interface [polypeptide binding]; other site 349101010287 ATP binding site [chemical binding]; other site 349101010288 BtpA family; Region: BtpA; cl00440 349101010289 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 349101010290 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 349101010291 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 349101010292 metal binding site [ion binding]; metal-binding site 349101010293 dimer interface [polypeptide binding]; other site 349101010294 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 349101010295 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 349101010296 Walker A/P-loop; other site 349101010297 ATP binding site [chemical binding]; other site 349101010298 Q-loop/lid; other site 349101010299 ABC transporter signature motif; other site 349101010300 Walker B; other site 349101010301 D-loop; other site 349101010302 H-loop/switch region; other site 349101010303 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101010304 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 349101010305 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 349101010306 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 349101010307 dimer interface [polypeptide binding]; other site 349101010308 conserved gate region; other site 349101010309 putative PBP binding loops; other site 349101010310 ABC-ATPase subunit interface; other site 349101010311 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 349101010312 dimer interface [polypeptide binding]; other site 349101010313 conserved gate region; other site 349101010314 ABC-ATPase subunit interface; other site 349101010315 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349101010316 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349101010317 DNA binding site [nucleotide binding] 349101010318 domain linker motif; other site 349101010319 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 349101010320 dimerization interface [polypeptide binding]; other site 349101010321 ligand binding site [chemical binding]; other site 349101010322 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 349101010323 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 349101010324 putative ligand binding site [chemical binding]; other site 349101010325 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 349101010326 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 349101010327 Walker A/P-loop; other site 349101010328 ATP binding site [chemical binding]; other site 349101010329 Q-loop/lid; other site 349101010330 ABC transporter signature motif; other site 349101010331 Walker B; other site 349101010332 D-loop; other site 349101010333 H-loop/switch region; other site 349101010334 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 349101010335 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 349101010336 TM-ABC transporter signature motif; other site 349101010337 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 349101010338 classical (c) SDRs; Region: SDR_c; cd05233 349101010339 NAD(P) binding site [chemical binding]; other site 349101010340 active site 349101010341 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 349101010342 N- and C-terminal domain interface [polypeptide binding]; other site 349101010343 FGGY-family pentulose kinase; Region: 5C_CHO_kinase; TIGR01315 349101010344 putative active site [active] 349101010345 putative MgATP binding site [chemical binding]; other site 349101010346 catalytic site [active] 349101010347 metal binding site [ion binding]; metal-binding site 349101010348 carbohydrate binding site [chemical binding]; other site 349101010349 putative homodimer interface [polypeptide binding]; other site 349101010350 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 349101010351 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349101010352 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 349101010353 ligand binding site [chemical binding]; other site 349101010354 flexible hinge region; other site 349101010355 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 349101010356 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 349101010357 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349101010358 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349101010359 dimer interface [polypeptide binding]; other site 349101010360 putative CheW interface [polypeptide binding]; other site 349101010361 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 349101010362 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 349101010363 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 349101010364 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 349101010365 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 349101010366 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 349101010367 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 349101010368 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 349101010369 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 349101010370 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 349101010371 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 349101010372 selenophosphate synthetase; Provisional; Region: PRK00943 349101010373 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 349101010374 dimerization interface [polypeptide binding]; other site 349101010375 putative ATP binding site [chemical binding]; other site 349101010376 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 349101010377 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 349101010378 MatE; Region: MatE; cl10513 349101010379 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 349101010380 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 349101010381 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 349101010382 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349101010383 active site 349101010384 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 349101010385 Acyltransferase family; Region: Acyl_transf_3; pfam01757 349101010386 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 349101010387 Histidine kinase; Region: HisKA_2; cl06527 349101010388 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 349101010389 ATP binding site [chemical binding]; other site 349101010390 Mg2+ binding site [ion binding]; other site 349101010391 G-X-G motif; other site 349101010392 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101010393 G1 box; other site 349101010394 GTP/Mg2+ binding site [chemical binding]; other site 349101010395 G2 box; other site 349101010396 Switch I region; other site 349101010397 G3 box; other site 349101010398 Switch II region; other site 349101010399 G4 box; other site 349101010400 Dynamin family; Region: Dynamin_N; pfam00350 349101010401 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101010402 G1 box; other site 349101010403 GTP/Mg2+ binding site [chemical binding]; other site 349101010404 G2 box; other site 349101010405 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101010406 G3 box; other site 349101010407 Switch II region; other site 349101010408 GTP/Mg2+ binding site [chemical binding]; other site 349101010409 G4 box; other site 349101010410 G5 box; other site 349101010411 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 349101010412 putative S-transferase; Provisional; Region: PRK11752 349101010413 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 349101010414 C-terminal domain interface [polypeptide binding]; other site 349101010415 GSH binding site (G-site) [chemical binding]; other site 349101010416 dimer interface [polypeptide binding]; other site 349101010417 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 349101010418 dimer interface [polypeptide binding]; other site 349101010419 N-terminal domain interface [polypeptide binding]; other site 349101010420 active site 349101010421 Helix-turn-helix domains; Region: HTH; cl00088 349101010422 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 349101010423 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 349101010424 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 349101010425 ligand binding site [chemical binding]; other site 349101010426 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 349101010427 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 349101010428 Walker A/P-loop; other site 349101010429 ATP binding site [chemical binding]; other site 349101010430 Q-loop/lid; other site 349101010431 ABC transporter signature motif; other site 349101010432 Walker B; other site 349101010433 D-loop; other site 349101010434 H-loop/switch region; other site 349101010435 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 349101010436 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 349101010437 TM-ABC transporter signature motif; other site 349101010438 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 349101010439 TM-ABC transporter signature motif; other site 349101010440 deoxyribose mutarotase_like; Region: deoxyribose_mutarotase; cd09269 349101010441 active site 349101010442 catalytic residues [active] 349101010443 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 349101010444 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 349101010445 substrate binding site [chemical binding]; other site 349101010446 dimer interface [polypeptide binding]; other site 349101010447 ATP binding site [chemical binding]; other site 349101010448 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 349101010449 intersubunit interface [polypeptide binding]; other site 349101010450 active site 349101010451 catalytic residue [active] 349101010452 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 349101010453 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349101010454 NAD(P) binding site [chemical binding]; other site 349101010455 catalytic residues [active] 349101010456 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 349101010457 NAD(P) binding site [chemical binding]; other site 349101010458 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 349101010459 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349101010460 substrate binding pocket [chemical binding]; other site 349101010461 membrane-bound complex binding site; other site 349101010462 hinge residues; other site 349101010463 Arginase family; Region: Arginase; cl00306 349101010464 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 349101010465 dimer interface [polypeptide binding]; other site 349101010466 conserved gate region; other site 349101010467 putative PBP binding loops; other site 349101010468 ABC-ATPase subunit interface; other site 349101010469 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349101010470 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 349101010471 Walker A/P-loop; other site 349101010472 ATP binding site [chemical binding]; other site 349101010473 Q-loop/lid; other site 349101010474 ABC transporter signature motif; other site 349101010475 Walker B; other site 349101010476 D-loop; other site 349101010477 H-loop/switch region; other site 349101010478 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 349101010479 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 349101010480 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 349101010481 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 349101010482 active site 349101010483 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 349101010484 hypothetical protein; Provisional; Region: PRK07483 349101010485 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 349101010486 inhibitor-cofactor binding pocket; inhibition site 349101010487 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101010488 catalytic residue [active] 349101010489 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 349101010490 Ligand Binding Site [chemical binding]; other site 349101010491 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349101010492 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349101010493 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 349101010494 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 349101010495 NMT1-like family; Region: NMT1_2; cl15260 349101010496 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 349101010497 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 349101010498 putative active site [active] 349101010499 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 349101010500 active site 349101010501 catalytic site [active] 349101010502 Zn binding site [ion binding]; other site 349101010503 tetramer interface [polypeptide binding]; other site 349101010504 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101010505 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 349101010506 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 349101010507 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 349101010508 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 349101010509 NMT1-like family; Region: NMT1_2; cl15260 349101010510 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 349101010511 ParB-like nuclease domain; Region: ParBc; cl02129 349101010512 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 349101010513 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 349101010514 P-loop; other site 349101010515 Magnesium ion binding site [ion binding]; other site 349101010516 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 349101010517 Magnesium ion binding site [ion binding]; other site 349101010518 Initiator Replication protein; Region: Rep_3; cl03080 349101010519 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 349101010520 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 349101010521 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 349101010522 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 349101010523 catalytic residues [active] 349101010524 catalytic nucleophile [active] 349101010525 Recombinase; Region: Recombinase; pfam07508 349101010526 ParB-like nuclease domain; Region: ParBc; cl02129 349101010527 RepB plasmid partitioning protein; Region: RepB; pfam07506 349101010528 ParB-like nuclease domain; Region: ParBc; cl02129 349101010529 RepB plasmid partitioning protein; Region: RepB; pfam07506 349101010530 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 349101010531 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 349101010532 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 349101010533 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349101010534 GTPase CgtA; Reviewed; Region: obgE; PRK12299 349101010535 GTP1/OBG; Region: GTP1_OBG; pfam01018 349101010536 Obg GTPase; Region: Obg; cd01898 349101010537 G1 box; other site 349101010538 GTP/Mg2+ binding site [chemical binding]; other site 349101010539 Switch I region; other site 349101010540 G2 box; other site 349101010541 G3 box; other site 349101010542 Switch II region; other site 349101010543 G4 box; other site 349101010544 G5 box; other site 349101010545 gamma-glutamyl kinase; Provisional; Region: PRK05429 349101010546 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 349101010547 nucleotide binding site [chemical binding]; other site 349101010548 homotetrameric interface [polypeptide binding]; other site 349101010549 putative phosphate binding site [ion binding]; other site 349101010550 putative allosteric binding site; other site 349101010551 PUA domain; Region: PUA; cl00607 349101010552 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 349101010553 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 349101010554 putative catalytic cysteine [active] 349101010555 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 349101010556 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 349101010557 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349101010558 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 349101010559 putative acyl-acceptor binding pocket; other site 349101010560 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 349101010561 thiamine phosphate binding site [chemical binding]; other site 349101010562 active site 349101010563 pyrophosphate binding site [ion binding]; other site 349101010564 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 349101010565 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 349101010566 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 349101010567 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 349101010568 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 349101010569 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 349101010570 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 349101010571 active site 349101010572 Zn binding site [ion binding]; other site 349101010573 enoyl-CoA hydratase; Validated; Region: PRK08139 349101010574 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 349101010575 substrate binding site [chemical binding]; other site 349101010576 oxyanion hole (OAH) forming residues; other site 349101010577 trimer interface [polypeptide binding]; other site 349101010578 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 349101010579 CoenzymeA binding site [chemical binding]; other site 349101010580 subunit interaction site [polypeptide binding]; other site 349101010581 PHB binding site; other site 349101010582 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 349101010583 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 349101010584 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 349101010585 active site 349101010586 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 349101010587 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 349101010588 RNA polymerase sigma factor; Provisional; Region: PRK12514 349101010589 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349101010590 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 349101010591 DNA binding residues [nucleotide binding] 349101010592 Anti-sigma-K factor rskA; Region: RskA; pfam10099 349101010593 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 349101010594 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 349101010595 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 349101010596 Trp docking motif [polypeptide binding]; other site 349101010597 putative active site [active] 349101010598 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 349101010599 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 349101010600 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 349101010601 ATP binding site [chemical binding]; other site 349101010602 putative Mg++ binding site [ion binding]; other site 349101010603 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 349101010604 nucleotide binding region [chemical binding]; other site 349101010605 ATP-binding site [chemical binding]; other site 349101010606 TRCF domain; Region: TRCF; cl04088 349101010607 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349101010608 DctM-like transporters; Region: DctM; pfam06808 349101010609 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349101010610 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 349101010611 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 349101010612 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 349101010613 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 349101010614 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 349101010615 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 349101010616 putative NAD(P) binding site [chemical binding]; other site 349101010617 catalytic Zn binding site [ion binding]; other site 349101010618 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 349101010619 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 349101010620 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 349101010621 putative active site [active] 349101010622 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 349101010623 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 349101010624 substrate binding site [chemical binding]; other site 349101010625 ATP binding site [chemical binding]; other site 349101010626 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 349101010627 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349101010628 Helix-turn-helix domains; Region: HTH; cl00088 349101010629 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 349101010630 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101010631 NAD(P) binding site [chemical binding]; other site 349101010632 active site 349101010633 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 349101010634 AMP-binding enzyme; Region: AMP-binding; cl15778 349101010635 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349101010636 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_3; cd06336 349101010637 putative ligand binding site [chemical binding]; other site 349101010638 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 349101010639 TM-ABC transporter signature motif; other site 349101010640 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 349101010641 TM-ABC transporter signature motif; other site 349101010642 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 349101010643 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 349101010644 Walker A/P-loop; other site 349101010645 ATP binding site [chemical binding]; other site 349101010646 Q-loop/lid; other site 349101010647 ABC transporter signature motif; other site 349101010648 Walker B; other site 349101010649 D-loop; other site 349101010650 H-loop/switch region; other site 349101010651 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 349101010652 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 349101010653 Walker A/P-loop; other site 349101010654 ATP binding site [chemical binding]; other site 349101010655 Q-loop/lid; other site 349101010656 ABC transporter signature motif; other site 349101010657 Walker B; other site 349101010658 D-loop; other site 349101010659 H-loop/switch region; other site 349101010660 enoyl-CoA hydratase; Provisional; Region: PRK06495 349101010661 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 349101010662 substrate binding site [chemical binding]; other site 349101010663 oxyanion hole (OAH) forming residues; other site 349101010664 trimer interface [polypeptide binding]; other site 349101010665 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 349101010666 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 349101010667 substrate binding site [chemical binding]; other site 349101010668 oxyanion hole (OAH) forming residues; other site 349101010669 trimer interface [polypeptide binding]; other site 349101010670 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 349101010671 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 349101010672 N-terminal plug; other site 349101010673 ligand-binding site [chemical binding]; other site 349101010674 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 349101010675 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 349101010676 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 349101010677 trimer interface [polypeptide binding]; other site 349101010678 active site 349101010679 substrate binding site [chemical binding]; other site 349101010680 CoA binding site [chemical binding]; other site 349101010681 Cysteine-rich small domain; Region: zf-like; cl00946 349101010682 cobyric acid synthase; Provisional; Region: PRK00784 349101010683 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101010684 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101010685 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 349101010686 catalytic triad [active] 349101010687 cobyric acid synthase; Provisional; Region: PRK00784 349101010688 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101010689 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101010690 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 349101010691 catalytic triad [active] 349101010692 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 349101010693 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101010694 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 349101010695 Helix-turn-helix domains; Region: HTH; cl00088 349101010696 LysR family transcriptional regulator; Provisional; Region: PRK14997 349101010697 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 349101010698 putative effector binding pocket; other site 349101010699 dimerization interface [polypeptide binding]; other site 349101010700 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 349101010701 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101010702 DNA-binding site [nucleotide binding]; DNA binding site 349101010703 FCD domain; Region: FCD; cl11656 349101010704 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349101010705 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 349101010706 DctM-like transporters; Region: DctM; pfam06808 349101010707 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349101010708 galactonate dehydratase; Provisional; Region: PRK14017 349101010709 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 349101010710 active site pocket [active] 349101010711 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 349101010712 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349101010713 Helix-turn-helix domains; Region: HTH; cl00088 349101010714 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 349101010715 putative dimerization interface [polypeptide binding]; other site 349101010716 PrpF protein; Region: PrpF; pfam04303 349101010717 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 349101010718 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 349101010719 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 349101010720 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 349101010721 putative C-terminal domain interface [polypeptide binding]; other site 349101010722 putative GSH binding site (G-site) [chemical binding]; other site 349101010723 putative dimer interface [polypeptide binding]; other site 349101010724 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 349101010725 N-terminal domain interface [polypeptide binding]; other site 349101010726 dimer interface [polypeptide binding]; other site 349101010727 substrate binding pocket (H-site) [chemical binding]; other site 349101010728 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 349101010729 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 349101010730 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 349101010731 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349101010732 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 349101010733 Walker A/P-loop; other site 349101010734 ATP binding site [chemical binding]; other site 349101010735 Q-loop/lid; other site 349101010736 ABC transporter signature motif; other site 349101010737 Walker B; other site 349101010738 D-loop; other site 349101010739 H-loop/switch region; other site 349101010740 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349101010741 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 349101010742 dimer interface [polypeptide binding]; other site 349101010743 conserved gate region; other site 349101010744 putative PBP binding loops; other site 349101010745 ABC-ATPase subunit interface; other site 349101010746 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 349101010747 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349101010748 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 349101010749 putative PBP binding loops; other site 349101010750 dimer interface [polypeptide binding]; other site 349101010751 ABC-ATPase subunit interface; other site 349101010752 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 349101010753 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 349101010754 substrate binding pocket [chemical binding]; other site 349101010755 membrane-bound complex binding site; other site 349101010756 hinge residues; other site 349101010757 cystathionine beta-lyase; Provisional; Region: PRK09028 349101010758 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 349101010759 homodimer interface [polypeptide binding]; other site 349101010760 substrate-cofactor binding pocket; other site 349101010761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101010762 catalytic residue [active] 349101010763 Transcriptional regulators [Transcription]; Region: FadR; COG2186 349101010764 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101010765 DNA-binding site [nucleotide binding]; DNA binding site 349101010766 FCD domain; Region: FCD; cl11656 349101010767 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 349101010768 ABC-ATPase subunit interface; other site 349101010769 dimer interface [polypeptide binding]; other site 349101010770 putative PBP binding regions; other site 349101010771 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 349101010772 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101010773 Walker A/P-loop; other site 349101010774 ATP binding site [chemical binding]; other site 349101010775 Q-loop/lid; other site 349101010776 ABC transporter signature motif; other site 349101010777 Walker B; other site 349101010778 D-loop; other site 349101010779 H-loop/switch region; other site 349101010780 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 349101010781 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 349101010782 intersubunit interface [polypeptide binding]; other site 349101010783 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 349101010784 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 349101010785 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 349101010786 Secretin and TonB N terminus short domain; Region: STN; cl06624 349101010787 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 349101010788 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 349101010789 N-terminal plug; other site 349101010790 ligand-binding site [chemical binding]; other site 349101010791 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 349101010792 FecR protein; Region: FecR; pfam04773 349101010793 RNA polymerase sigma factor; Reviewed; Region: PRK12527 349101010794 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349101010795 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 349101010796 DNA binding residues [nucleotide binding] 349101010797 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349101010798 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101010799 DNA-binding site [nucleotide binding]; DNA binding site 349101010800 FCD domain; Region: FCD; cl11656 349101010801 Helix-turn-helix domains; Region: HTH; cl00088 349101010802 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 349101010803 C-terminal domain interface [polypeptide binding]; other site 349101010804 sugar binding site [chemical binding]; other site 349101010805 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 349101010806 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 349101010807 PrpF protein; Region: PrpF; pfam04303 349101010808 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 349101010809 Chromate transporter; Region: Chromate_transp; pfam02417 349101010810 Chromate transporter; Region: Chromate_transp; pfam02417 349101010811 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 349101010812 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 349101010813 Walker A/P-loop; other site 349101010814 ATP binding site [chemical binding]; other site 349101010815 Q-loop/lid; other site 349101010816 ABC transporter signature motif; other site 349101010817 Walker B; other site 349101010818 D-loop; other site 349101010819 H-loop/switch region; other site 349101010820 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 349101010821 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 349101010822 dimer interface [polypeptide binding]; other site 349101010823 conserved gate region; other site 349101010824 putative PBP binding loops; other site 349101010825 ABC-ATPase subunit interface; other site 349101010826 tricarballylate dehydrogenase; Validated; Region: PRK08274 349101010827 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 349101010828 dimer interface [polypeptide binding]; other site 349101010829 conserved gate region; other site 349101010830 putative PBP binding loops; other site 349101010831 ABC-ATPase subunit interface; other site 349101010832 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 349101010833 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 349101010834 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 349101010835 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 349101010836 active site 349101010837 intersubunit interface [polypeptide binding]; other site 349101010838 catalytic residue [active] 349101010839 Transcriptional regulators [Transcription]; Region: FadR; COG2186 349101010840 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101010841 DNA-binding site [nucleotide binding]; DNA binding site 349101010842 FCD domain; Region: FCD; cl11656 349101010843 Dehydratase family; Region: ILVD_EDD; cl00340 349101010844 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349101010845 DctM-like transporters; Region: DctM; pfam06808 349101010846 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 349101010847 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349101010848 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 349101010849 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 349101010850 putative NAD(P) binding site [chemical binding]; other site 349101010851 catalytic Zn binding site [ion binding]; other site 349101010852 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 349101010853 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 349101010854 NADP binding site [chemical binding]; other site 349101010855 homodimer interface [polypeptide binding]; other site 349101010856 active site 349101010857 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 349101010858 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 349101010859 active site pocket [active] 349101010860 galactonate dehydratase; Provisional; Region: PRK14017 349101010861 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 349101010862 putative active site pocket [active] 349101010863 putative metal binding site [ion binding]; other site 349101010864 Animal prostaglandin endoperoxide synthase and related bacterial proteins; Region: prostaglandin_endoperoxide_synthase; cd09816 349101010865 substrate binding site [chemical binding]; other site 349101010866 homodimer interface [polypeptide binding]; other site 349101010867 heme binding site [chemical binding]; other site 349101010868 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 349101010869 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 349101010870 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349101010871 substrate binding pocket [chemical binding]; other site 349101010872 membrane-bound complex binding site; other site 349101010873 hinge residues; other site 349101010874 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 349101010875 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 349101010876 dimer interface [polypeptide binding]; other site 349101010877 PYR/PP interface [polypeptide binding]; other site 349101010878 TPP binding site [chemical binding]; other site 349101010879 substrate binding site [chemical binding]; other site 349101010880 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 349101010881 TPP-binding site [chemical binding]; other site 349101010882 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 349101010883 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 349101010884 FAD binding domain; Region: FAD_binding_4; pfam01565 349101010885 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 349101010886 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 349101010887 NADP binding site [chemical binding]; other site 349101010888 dimer interface [polypeptide binding]; other site 349101010889 enoyl-CoA hydratase; Provisional; Region: PRK06688 349101010890 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 349101010891 substrate binding site [chemical binding]; other site 349101010892 oxyanion hole (OAH) forming residues; other site 349101010893 trimer interface [polypeptide binding]; other site 349101010894 feruloyl-CoA synthase; Reviewed; Region: PRK08180 349101010895 AMP-binding enzyme; Region: AMP-binding; cl15778 349101010896 Transcriptional regulators [Transcription]; Region: FadR; COG2186 349101010897 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101010898 DNA-binding site [nucleotide binding]; DNA binding site 349101010899 FCD domain; Region: FCD; cl11656 349101010900 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 349101010901 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101010902 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349101010903 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101010904 Walker A/P-loop; other site 349101010905 ATP binding site [chemical binding]; other site 349101010906 Q-loop/lid; other site 349101010907 ABC transporter signature motif; other site 349101010908 Walker B; other site 349101010909 D-loop; other site 349101010910 H-loop/switch region; other site 349101010911 TOBE domain; Region: TOBE_2; cl01440 349101010912 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 349101010913 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 349101010914 dimer interface [polypeptide binding]; other site 349101010915 conserved gate region; other site 349101010916 putative PBP binding loops; other site 349101010917 ABC-ATPase subunit interface; other site 349101010918 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 349101010919 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 349101010920 dimer interface [polypeptide binding]; other site 349101010921 conserved gate region; other site 349101010922 putative PBP binding loops; other site 349101010923 ABC-ATPase subunit interface; other site 349101010924 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 349101010925 classical (c) SDRs; Region: SDR_c; cd05233 349101010926 NAD(P) binding site [chemical binding]; other site 349101010927 active site 349101010928 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 349101010929 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 349101010930 PYR/PP interface [polypeptide binding]; other site 349101010931 dimer interface [polypeptide binding]; other site 349101010932 TPP binding site [chemical binding]; other site 349101010933 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349101010934 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 349101010935 TPP-binding site [chemical binding]; other site 349101010936 dimer interface [polypeptide binding]; other site 349101010937 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 349101010938 classical (c) SDRs; Region: SDR_c; cd05233 349101010939 NAD(P) binding site [chemical binding]; other site 349101010940 active site 349101010941 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 349101010942 DctM-like transporters; Region: DctM; pfam06808 349101010943 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349101010944 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 349101010945 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349101010946 Transcriptional regulator [Transcription]; Region: IclR; COG1414 349101010947 Helix-turn-helix domains; Region: HTH; cl00088 349101010948 Bacterial transcriptional regulator; Region: IclR; pfam01614 349101010949 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 349101010950 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 349101010951 molybdopterin cofactor binding site [chemical binding]; other site 349101010952 substrate binding site [chemical binding]; other site 349101010953 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 349101010954 molybdopterin cofactor binding site; other site 349101010955 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349101010956 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101010957 DNA-binding site [nucleotide binding]; DNA binding site 349101010958 FCD domain; Region: FCD; cl11656 349101010959 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 349101010960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101010961 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 349101010962 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 349101010963 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 349101010964 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 349101010965 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349101010966 DctM-like transporters; Region: DctM; pfam06808 349101010967 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 349101010968 B12 binding site [chemical binding]; other site 349101010969 cobalt ligand [ion binding]; other site 349101010970 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 349101010971 AMP-binding enzyme; Region: AMP-binding; cl15778 349101010972 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 349101010973 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 349101010974 Walker A; other site 349101010975 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 349101010976 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 349101010977 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 349101010978 trimer interface [polypeptide binding]; other site 349101010979 putative metal binding site [ion binding]; other site 349101010980 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 349101010981 trimer interface [polypeptide binding]; other site 349101010982 putative metal binding site [ion binding]; other site 349101010983 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 349101010984 Helix-turn-helix domains; Region: HTH; cl00088 349101010985 D-serine deaminase transcriptional activator; Region: dsdC; TIGR02036 349101010986 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101010987 EamA-like transporter family; Region: EamA; cl01037 349101010988 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 349101010989 EamA-like transporter family; Region: EamA; cl01037 349101010990 Putative glycolipid-binding; Region: Glycolipid_bind; cl01425 349101010991 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 349101010992 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349101010993 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 349101010994 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349101010995 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 349101010996 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 349101010997 Walker A/P-loop; other site 349101010998 ATP binding site [chemical binding]; other site 349101010999 Q-loop/lid; other site 349101011000 ABC transporter signature motif; other site 349101011001 Walker B; other site 349101011002 D-loop; other site 349101011003 H-loop/switch region; other site 349101011004 NMT1/THI5 like; Region: NMT1; pfam09084 349101011005 NMT1-like family; Region: NMT1_2; cl15260 349101011006 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 349101011007 AMP-binding enzyme; Region: AMP-binding; cl15778 349101011008 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 349101011009 Domain of unknown function (DUF305); Region: DUF305; cl15795 349101011010 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 349101011011 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 349101011012 Ca2+ binding site [ion binding]; other site 349101011013 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 349101011014 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 349101011015 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 349101011016 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 349101011017 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101011018 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 349101011019 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 349101011020 Bacterial sugar transferase; Region: Bac_transf; cl00939 349101011021 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349101011022 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 349101011023 NAD binding site [chemical binding]; other site 349101011024 putative substrate binding site 2 [chemical binding]; other site 349101011025 putative substrate binding site 1 [chemical binding]; other site 349101011026 active site 349101011027 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 349101011028 Tetratricopeptide repeat; Region: TPR_16; pfam13432 349101011029 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 349101011030 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 349101011031 Ligand binding site; other site 349101011032 metal-binding site 349101011033 MatE; Region: MatE; cl10513 349101011034 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 349101011035 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 349101011036 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 349101011037 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 349101011038 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 349101011039 putative trimer interface [polypeptide binding]; other site 349101011040 putative active site [active] 349101011041 putative substrate binding site [chemical binding]; other site 349101011042 putative CoA binding site [chemical binding]; other site 349101011043 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349101011044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101011045 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 349101011046 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 349101011047 inhibitor-cofactor binding pocket; inhibition site 349101011048 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101011049 catalytic residue [active] 349101011050 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349101011051 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101011052 NAD(P) binding site [chemical binding]; other site 349101011053 active site 349101011054 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 349101011055 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 349101011056 inhibitor-cofactor binding pocket; inhibition site 349101011057 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101011058 catalytic residue [active] 349101011059 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 349101011060 Chain length determinant protein; Region: Wzz; cl15801 349101011061 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101011062 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 349101011063 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 349101011064 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 349101011065 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 349101011066 O-Antigen ligase; Region: Wzy_C; cl04850 349101011067 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; cl16911 349101011068 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 349101011069 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349101011070 CDP-tyvelose 2-epimerase, extended (e) SDRs; Region: CDP_TE_SDR_e; cd05258 349101011071 NAD binding site [chemical binding]; other site 349101011072 homotetramer interface [polypeptide binding]; other site 349101011073 homodimer interface [polypeptide binding]; other site 349101011074 active site 349101011075 substrate binding site [chemical binding]; other site 349101011076 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 349101011077 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349101011078 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 349101011079 DNA binding residues [nucleotide binding] 349101011080 dimerization interface [polypeptide binding]; other site 349101011081 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 349101011082 putative trimer interface [polypeptide binding]; other site 349101011083 putative CoA binding site [chemical binding]; other site 349101011084 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 349101011085 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349101011086 Helix-turn-helix domains; Region: HTH; cl00088 349101011087 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 349101011088 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 349101011089 putative substrate translocation pore; other site 349101011090 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 349101011091 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349101011092 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349101011093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101011094 short chain dehydrogenase; Provisional; Region: PRK06123 349101011095 NAD(P) binding site [chemical binding]; other site 349101011096 active site 349101011097 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 349101011098 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 349101011099 B12 binding site [chemical binding]; other site 349101011100 B12-binding domain/radical SAM domain protein, MJ_1487 family; Region: B12_SAM_MJ_1487; TIGR04013 349101011101 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 349101011102 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349101011103 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 349101011104 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 349101011105 putative FMN binding site [chemical binding]; other site 349101011106 NADPH bind site [chemical binding]; other site 349101011107 bacteriocin biosynthesis docking scaffold, SagD family; Region: docking_ocin; cl09146 349101011108 YcaO-like family; Region: YcaO; pfam02624 349101011109 putative thiazole-containing bacteriocin maturation protein; Region: ocin_ThiF_like; TIGR03693 349101011110 MoeZ/MoeB domain; Region: MoeZ_MoeB; cl14816 349101011111 peptide modification radical SAM enzyme, YydG family; Region: rSAM_yydG; TIGR04078 349101011112 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 349101011113 FeS/SAM binding site; other site 349101011114 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 349101011115 MPN+ (JAMM) motif; other site 349101011116 Zinc-binding site [ion binding]; other site 349101011117 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 349101011118 DEAD-like helicases superfamily; Region: DEXDc; smart00487 349101011119 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 349101011120 ATP binding site [chemical binding]; other site 349101011121 putative Mg++ binding site [ion binding]; other site 349101011122 DDE superfamily endonuclease; Region: DDE_4; cl15789 349101011123 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349101011124 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 349101011125 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349101011126 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 349101011127 ATP binding site [chemical binding]; other site 349101011128 Mg2+ binding site [ion binding]; other site 349101011129 G-X-G motif; other site 349101011130 RES domain; Region: RES; cl02411 349101011131 Helix-turn-helix domains; Region: HTH; cl00088 349101011132 Winged helix-turn helix; Region: HTH_29; pfam13551 349101011133 Helix-turn-helix domains; Region: HTH; cl00088 349101011134 Integrase core domain; Region: rve; cl01316 349101011135 Integrase core domain; Region: rve_3; cl15866 349101011136 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 349101011137 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 349101011138 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 349101011139 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 349101011140 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 349101011141 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 349101011142 Flavin Reductases; Region: FlaRed; cl00801 349101011143 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 349101011144 Naphthocyclinone hydroxylase; Region: NcnH; cd01159 349101011145 Flavin binding site [chemical binding]; other site 349101011146 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349101011147 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 349101011148 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 349101011149 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 349101011150 active site 349101011151 metal binding site [ion binding]; metal-binding site 349101011152 C-terminal domain of type I, class II extradiol dioxygenases; catalytic domain; Region: ED_TypeI_classII_C; cd08343 349101011153 active site 349101011154 metal binding site [ion binding]; metal-binding site 349101011155 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349101011156 Helix-turn-helix domains; Region: HTH; cl00088 349101011157 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 349101011158 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 349101011159 Helix-turn-helix domains; Region: HTH; cl00088 349101011160 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 349101011161 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101011162 DNA-binding site [nucleotide binding]; DNA binding site 349101011163 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 349101011164 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101011165 homodimer interface [polypeptide binding]; other site 349101011166 catalytic residue [active] 349101011167 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 349101011168 4Fe-4S binding domain; Region: Fer4_5; pfam12801 349101011169 4Fe-4S binding domain; Region: Fer4; cl02805 349101011170 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 349101011171 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 349101011172 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 349101011173 substrate-cofactor binding pocket; other site 349101011174 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101011175 catalytic residue [active] 349101011176 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349101011177 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101011178 DNA-binding site [nucleotide binding]; DNA binding site 349101011179 FCD domain; Region: FCD; cl11656 349101011180 dipeptide transporter permease DppB; Provisional; Region: PRK10914 349101011181 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 349101011182 dimer interface [polypeptide binding]; other site 349101011183 conserved gate region; other site 349101011184 putative PBP binding loops; other site 349101011185 ABC-ATPase subunit interface; other site 349101011186 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 349101011187 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349101011188 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 349101011189 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101011190 Walker A/P-loop; other site 349101011191 ATP binding site [chemical binding]; other site 349101011192 Q-loop/lid; other site 349101011193 ABC transporter signature motif; other site 349101011194 Walker B; other site 349101011195 D-loop; other site 349101011196 H-loop/switch region; other site 349101011197 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349101011198 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 349101011199 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101011200 Walker A/P-loop; other site 349101011201 ATP binding site [chemical binding]; other site 349101011202 Q-loop/lid; other site 349101011203 ABC transporter signature motif; other site 349101011204 Walker B; other site 349101011205 D-loop; other site 349101011206 H-loop/switch region; other site 349101011207 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349101011208 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_1; cd08508 349101011209 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 349101011210 H+ Antiporter protein; Region: 2A0121; TIGR00900 349101011211 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 349101011212 putative substrate translocation pore; other site 349101011213 Predicted acyl esterases [General function prediction only]; Region: COG2936 349101011214 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 349101011215 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 349101011216 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 349101011217 classical (c) SDRs; Region: SDR_c; cd05233 349101011218 NAD(P) binding site [chemical binding]; other site 349101011219 active site 349101011220 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 349101011221 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 349101011222 dimer interface [polypeptide binding]; other site 349101011223 conserved gate region; other site 349101011224 putative PBP binding loops; other site 349101011225 ABC-ATPase subunit interface; other site 349101011226 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 349101011227 dimer interface [polypeptide binding]; other site 349101011228 conserved gate region; other site 349101011229 putative PBP binding loops; other site 349101011230 ABC-ATPase subunit interface; other site 349101011231 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 349101011232 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101011233 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349101011234 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101011235 Walker A/P-loop; other site 349101011236 ATP binding site [chemical binding]; other site 349101011237 Q-loop/lid; other site 349101011238 ABC transporter signature motif; other site 349101011239 Walker B; other site 349101011240 D-loop; other site 349101011241 H-loop/switch region; other site 349101011242 TOBE domain; Region: TOBE_2; cl01440 349101011243 transcriptional regulator EpsA; Region: EpsA; TIGR03020 349101011244 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 349101011245 DNA binding residues [nucleotide binding] 349101011246 dimerization interface [polypeptide binding]; other site 349101011247 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 349101011248 ATP binding site [chemical binding]; other site 349101011249 Mg2+ binding site [ion binding]; other site 349101011250 G-X-G motif; other site 349101011251 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 349101011252 Response regulator receiver domain; Region: Response_reg; pfam00072 349101011253 active site 349101011254 phosphorylation site [posttranslational modification] 349101011255 intermolecular recognition site; other site 349101011256 dimerization interface [polypeptide binding]; other site 349101011257 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 349101011258 putative binding surface; other site 349101011259 active site 349101011260 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 349101011261 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 349101011262 active site 349101011263 phosphorylation site [posttranslational modification] 349101011264 intermolecular recognition site; other site 349101011265 dimerization interface [polypeptide binding]; other site 349101011266 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 349101011267 DNA binding site [nucleotide binding] 349101011268 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 349101011269 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 349101011270 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 349101011271 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 349101011272 molybdopterin cofactor binding site [chemical binding]; other site 349101011273 substrate binding site [chemical binding]; other site 349101011274 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 349101011275 molybdopterin cofactor binding site; other site 349101011276 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 349101011277 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 349101011278 dimer interface [polypeptide binding]; other site 349101011279 putative functional site; other site 349101011280 putative MPT binding site; other site 349101011281 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 349101011282 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 349101011283 FeS/SAM binding site; other site 349101011284 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 349101011285 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 349101011286 Helix-turn-helix domains; Region: HTH; cl00088 349101011287 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101011288 dimerization interface [polypeptide binding]; other site 349101011289 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 349101011290 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349101011291 Zn binding site [ion binding]; other site 349101011292 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 349101011293 Zn binding site [ion binding]; other site 349101011294 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 349101011295 Predicted esterase [General function prediction only]; Region: COG0400 349101011296 Bacterial SH3 domain; Region: SH3_3; cl02551 349101011297 Helix-turn-helix domains; Region: HTH; cl00088 349101011298 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 349101011299 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 349101011300 N-terminal plug; other site 349101011301 ligand-binding site [chemical binding]; other site 349101011302 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 349101011303 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 349101011304 Walker A/P-loop; other site 349101011305 ATP binding site [chemical binding]; other site 349101011306 Q-loop/lid; other site 349101011307 ABC transporter signature motif; other site 349101011308 Walker B; other site 349101011309 D-loop; other site 349101011310 H-loop/switch region; other site 349101011311 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 349101011312 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 349101011313 dimer interface [polypeptide binding]; other site 349101011314 conserved gate region; other site 349101011315 ABC-ATPase subunit interface; other site 349101011316 NMT1-like family; Region: NMT1_2; cl15260 349101011317 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 349101011318 serine O-acetyltransferase; Region: cysE; TIGR01172 349101011319 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 349101011320 trimer interface [polypeptide binding]; other site 349101011321 active site 349101011322 substrate binding site [chemical binding]; other site 349101011323 CoA binding site [chemical binding]; other site 349101011324 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 349101011325 classical (c) SDRs; Region: SDR_c; cd05233 349101011326 NAD(P) binding site [chemical binding]; other site 349101011327 active site 349101011328 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 349101011329 AMP-binding enzyme; Region: AMP-binding; cl15778 349101011330 Helix-turn-helix domains; Region: HTH; cl00088 349101011331 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 349101011332 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 349101011333 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 349101011334 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 349101011335 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 349101011336 MOFRL family; Region: MOFRL; pfam05161 349101011337 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 349101011338 NADH(P)-binding; Region: NAD_binding_10; pfam13460 349101011339 NAD(P) binding site [chemical binding]; other site 349101011340 putative active site [active] 349101011341 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 349101011342 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 349101011343 Dehydratase family; Region: ILVD_EDD; cl00340 349101011344 TIGR03440 family protein; Region: unchr_TIGR03440 349101011345 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 349101011346 probable methyltransferase; Region: TIGR03438 349101011347 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; cl16911 349101011348 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 349101011349 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 349101011350 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 349101011351 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 349101011352 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 349101011353 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 349101011354 putative ligand binding residues [chemical binding]; other site 349101011355 BCCT family transporter; Region: BCCT; cl00569 349101011356 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349101011357 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 349101011358 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 349101011359 Walker A/P-loop; other site 349101011360 ATP binding site [chemical binding]; other site 349101011361 Q-loop/lid; other site 349101011362 ABC transporter signature motif; other site 349101011363 Walker B; other site 349101011364 D-loop; other site 349101011365 H-loop/switch region; other site 349101011366 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 349101011367 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 349101011368 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 349101011369 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349101011370 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349101011371 dimer interface [polypeptide binding]; other site 349101011372 putative CheW interface [polypeptide binding]; other site 349101011373 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 349101011374 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 349101011375 Sulfatase; Region: Sulfatase; cl10460 349101011376 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 349101011377 sensor protein QseC; Provisional; Region: PRK10337 349101011378 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 349101011379 dimer interface [polypeptide binding]; other site 349101011380 phosphorylation site [posttranslational modification] 349101011381 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 349101011382 Mg2+ binding site [ion binding]; other site 349101011383 G-X-G motif; other site 349101011384 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 349101011385 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 349101011386 active site 349101011387 phosphorylation site [posttranslational modification] 349101011388 intermolecular recognition site; other site 349101011389 dimerization interface [polypeptide binding]; other site 349101011390 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 349101011391 DNA binding site [nucleotide binding] 349101011392 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 349101011393 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 349101011394 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 349101011395 PhnA protein; Region: PhnA; pfam03831 349101011396 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 349101011397 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; cl01353 349101011398 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 349101011399 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 349101011400 RNA polymerase sigma factor; Provisional; Region: PRK12511 349101011401 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349101011402 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 349101011403 DNA binding residues [nucleotide binding] 349101011404 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 349101011405 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 349101011406 D-pathway; other site 349101011407 Putative ubiquinol binding site [chemical binding]; other site 349101011408 Low-spin heme (heme b) binding site [chemical binding]; other site 349101011409 Putative water exit pathway; other site 349101011410 Binuclear center (heme o3/CuB) [ion binding]; other site 349101011411 K-pathway; other site 349101011412 Putative proton exit pathway; other site 349101011413 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 349101011414 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 349101011415 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 349101011416 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 349101011417 CHASE4 domain; Region: CHASE4; cl01308 349101011418 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349101011419 metal binding site [ion binding]; metal-binding site 349101011420 active site 349101011421 I-site; other site 349101011422 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 349101011423 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 349101011424 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 349101011425 putative hydrophobic ligand binding site [chemical binding]; other site 349101011426 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 349101011427 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 349101011428 NAD binding site [chemical binding]; other site 349101011429 catalytic Zn binding site [ion binding]; other site 349101011430 structural Zn binding site [ion binding]; other site 349101011431 putative diguanylate cyclase; Provisional; Region: PRK09776 349101011432 putative diguanylate cyclase; Provisional; Region: PRK09776 349101011433 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 349101011434 PAS domain S-box; Region: sensory_box; TIGR00229 349101011435 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 349101011436 PAS fold; Region: PAS_3; pfam08447 349101011437 putative active site [active] 349101011438 heme pocket [chemical binding]; other site 349101011439 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 349101011440 Histidine kinase; Region: HisKA_2; cl06527 349101011441 Cation efflux family; Region: Cation_efflux; cl00316 349101011442 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cl00846 349101011443 putative homotetramer interface [polypeptide binding]; other site 349101011444 putative homodimer interface [polypeptide binding]; other site 349101011445 putative allosteric switch controlling residues; other site 349101011446 putative metal binding site [ion binding]; other site 349101011447 putative homodimer-homodimer interface [polypeptide binding]; other site 349101011448 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 349101011449 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349101011450 dimer interface [polypeptide binding]; other site 349101011451 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 349101011452 putative CheW interface [polypeptide binding]; other site 349101011453 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349101011454 Helix-turn-helix domains; Region: HTH; cl00088 349101011455 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 349101011456 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 349101011457 C-terminal domain interface [polypeptide binding]; other site 349101011458 GSH binding site (G-site) [chemical binding]; other site 349101011459 dimer interface [polypeptide binding]; other site 349101011460 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 349101011461 N-terminal domain interface [polypeptide binding]; other site 349101011462 dimer interface [polypeptide binding]; other site 349101011463 substrate binding pocket (H-site) [chemical binding]; other site 349101011464 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 349101011465 putative C-terminal domain interface [polypeptide binding]; other site 349101011466 putative GSH binding site (G-site) [chemical binding]; other site 349101011467 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 349101011468 putative dimer interface [polypeptide binding]; other site 349101011469 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 349101011470 dimer interface [polypeptide binding]; other site 349101011471 N-terminal domain interface [polypeptide binding]; other site 349101011472 putative substrate binding pocket (H-site) [chemical binding]; other site 349101011473 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 349101011474 dimer interface [polypeptide binding]; other site 349101011475 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 349101011476 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349101011477 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101011478 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 349101011479 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 349101011480 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 349101011481 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 349101011482 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 349101011483 YodA lipocalin-like domain; Region: YodA; cl01365 349101011484 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 349101011485 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101011486 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 349101011487 DoxX; Region: DoxX; cl00976 349101011488 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 349101011489 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349101011490 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 349101011491 putative dimer interface [polypeptide binding]; other site 349101011492 N-terminal domain interface [polypeptide binding]; other site 349101011493 putative substrate binding pocket (H-site) [chemical binding]; other site 349101011494 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 349101011495 putative active site [active] 349101011496 metal binding site [ion binding]; metal-binding site 349101011497 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349101011498 Helix-turn-helix domains; Region: HTH; cl00088 349101011499 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 349101011500 putative effector binding pocket; other site 349101011501 dimerization interface [polypeptide binding]; other site 349101011502 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 349101011503 dimerization interface [polypeptide binding]; other site 349101011504 putative DNA binding site [nucleotide binding]; other site 349101011505 putative Zn2+ binding site [ion binding]; other site 349101011506 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 349101011507 Membrane transport protein; Region: Mem_trans; cl09117 349101011508 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 349101011509 ArsC family; Region: ArsC; pfam03960 349101011510 catalytic residues [active] 349101011511 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 349101011512 metal ion-dependent adhesion site (MIDAS); other site 349101011513 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 349101011514 phosphopeptide binding site; other site 349101011515 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cl00062 349101011516 phosphopeptide binding site; other site 349101011517 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 349101011518 active site 349101011519 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 349101011520 Catalytic domain of Protein Kinases; Region: PKc; cd00180 349101011521 active site 349101011522 ATP binding site [chemical binding]; other site 349101011523 substrate binding site [chemical binding]; other site 349101011524 activation loop (A-loop); other site 349101011525 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 349101011526 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 349101011527 phosphopeptide binding site; other site 349101011528 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 349101011529 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101011530 Walker A/P-loop; other site 349101011531 ATP binding site [chemical binding]; other site 349101011532 Q-loop/lid; other site 349101011533 ABC transporter signature motif; other site 349101011534 Walker B; other site 349101011535 D-loop; other site 349101011536 H-loop/switch region; other site 349101011537 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 349101011538 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 349101011539 Catalytic domain of Protein Kinases; Region: PKc; cd00180 349101011540 active site 349101011541 ATP binding site [chemical binding]; other site 349101011542 substrate binding site [chemical binding]; other site 349101011543 activation loop (A-loop); other site 349101011544 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 349101011545 metal ion-dependent adhesion site (MIDAS); other site 349101011546 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 349101011547 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101011548 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 349101011549 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 349101011550 Protein of unknown function, DUF485; Region: DUF485; cl01231 349101011551 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 349101011552 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 349101011553 Na binding site [ion binding]; other site 349101011554 NIPSNAP; Region: NIPSNAP; pfam07978 349101011555 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 349101011556 Fumarase C-terminus; Region: Fumerase_C; cl00795 349101011557 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 349101011558 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK06263 349101011559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101011560 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 349101011561 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 349101011562 Iron-sulfur protein interface; other site 349101011563 proximal heme binding site [chemical binding]; other site 349101011564 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 349101011565 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 349101011566 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 349101011567 NMT1-like family; Region: NMT1_2; cl15260 349101011568 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 349101011569 NMT1-like family; Region: NMT1_2; cl15260 349101011570 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 349101011571 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349101011572 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 349101011573 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 349101011574 Walker A/P-loop; other site 349101011575 ATP binding site [chemical binding]; other site 349101011576 Q-loop/lid; other site 349101011577 ABC transporter signature motif; other site 349101011578 Walker B; other site 349101011579 D-loop; other site 349101011580 H-loop/switch region; other site 349101011581 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 349101011582 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 349101011583 PYR/PP interface [polypeptide binding]; other site 349101011584 dimer interface [polypeptide binding]; other site 349101011585 TPP binding site [chemical binding]; other site 349101011586 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 349101011587 TPP-binding site [chemical binding]; other site 349101011588 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349101011589 Helix-turn-helix domains; Region: HTH; cl00088 349101011590 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 349101011591 putative dimerization interface [polypeptide binding]; other site 349101011592 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 349101011593 ABC-2 type transporter; Region: ABC2_membrane; cl11417 349101011594 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101011595 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 349101011596 Walker A/P-loop; other site 349101011597 ATP binding site [chemical binding]; other site 349101011598 Q-loop/lid; other site 349101011599 ABC transporter signature motif; other site 349101011600 Walker B; other site 349101011601 D-loop; other site 349101011602 H-loop/switch region; other site 349101011603 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 349101011604 Walker A/P-loop; other site 349101011605 ATP binding site [chemical binding]; other site 349101011606 Q-loop/lid; other site 349101011607 ABC transporter signature motif; other site 349101011608 Walker B; other site 349101011609 D-loop; other site 349101011610 H-loop/switch region; other site 349101011611 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 349101011612 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 349101011613 ABC-2 type transporter; Region: ABC2_membrane; cl11417 349101011614 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349101011615 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349101011616 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349101011617 Predicted integral membrane protein [Function unknown]; Region: COG0392 349101011618 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 349101011619 Uncharacterized conserved protein [Function unknown]; Region: COG2898 349101011620 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 349101011621 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 349101011622 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 349101011623 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 349101011624 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 349101011625 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 349101011626 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 349101011627 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 349101011628 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349101011629 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101011630 DNA-binding site [nucleotide binding]; DNA binding site 349101011631 FCD domain; Region: FCD; cl11656 349101011632 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 349101011633 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 349101011634 dimer interface [polypeptide binding]; other site 349101011635 conserved gate region; other site 349101011636 ABC-ATPase subunit interface; other site 349101011637 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 349101011638 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 349101011639 Walker A/P-loop; other site 349101011640 ATP binding site [chemical binding]; other site 349101011641 Q-loop/lid; other site 349101011642 ABC transporter signature motif; other site 349101011643 Walker B; other site 349101011644 D-loop; other site 349101011645 H-loop/switch region; other site 349101011646 NMT1/THI5 like; Region: NMT1; pfam09084 349101011647 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 349101011648 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 349101011649 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101011650 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 349101011651 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 349101011652 nucleobase-cation-symport-1 (NCS1) transporter Mhp1-like; solute-binding domain; Region: SLC-NCS1sbd_Mhp1-like; cd11483 349101011653 Na binding site [ion binding]; other site 349101011654 substrate binding site [chemical binding]; other site 349101011655 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_24; cd09012 349101011656 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349101011657 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 349101011658 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 349101011659 NAD binding site [chemical binding]; other site 349101011660 homotetramer interface [polypeptide binding]; other site 349101011661 homodimer interface [polypeptide binding]; other site 349101011662 substrate binding site [chemical binding]; other site 349101011663 active site 349101011664 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 349101011665 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 349101011666 dimer interface [polypeptide binding]; other site 349101011667 active site 349101011668 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 349101011669 active site 1 [active] 349101011670 dimer interface [polypeptide binding]; other site 349101011671 active site 2 [active] 349101011672 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 349101011673 metal binding site 2 [ion binding]; metal-binding site 349101011674 putative DNA binding helix; other site 349101011675 metal binding site 1 [ion binding]; metal-binding site 349101011676 dimer interface [polypeptide binding]; other site 349101011677 structural Zn2+ binding site [ion binding]; other site 349101011678 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 349101011679 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 349101011680 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 349101011681 CoA-transferase family III; Region: CoA_transf_3; pfam02515 349101011682 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 349101011683 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349101011684 active site 349101011685 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 349101011686 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101011687 NAD(P) binding site [chemical binding]; other site 349101011688 active site 349101011689 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 349101011690 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 349101011691 dimer interface [polypeptide binding]; other site 349101011692 active site 349101011693 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 349101011694 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 349101011695 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 349101011696 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 349101011697 ApbE family; Region: ApbE; cl00643 349101011698 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 349101011699 Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]; Region: DsrA; COG2221 349101011700 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 349101011701 catalytic loop [active] 349101011702 iron binding site [ion binding]; other site 349101011703 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 349101011704 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349101011705 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 349101011706 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 349101011707 electron transport complex, RnfABCDGE type, B subunit; Region: rnfB; TIGR01944 349101011708 Putative Fe-S cluster; Region: FeS; pfam04060 349101011709 4Fe-4S binding domain; Region: Fer4; cl02805 349101011710 4Fe-4S binding domain; Region: Fer4; cl02805 349101011711 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 349101011712 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 349101011713 SLBB domain; Region: SLBB; pfam10531 349101011714 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 349101011715 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 349101011716 FMN-binding domain; Region: FMN_bind; cl01081 349101011717 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 349101011718 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 349101011719 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 349101011720 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 349101011721 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 349101011722 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 349101011723 active site 349101011724 catalytic tetrad [active] 349101011725 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 349101011726 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 349101011727 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349101011728 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 349101011729 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 349101011730 conserved cys residue [active] 349101011731 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349101011732 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 349101011733 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 349101011734 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 349101011735 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 349101011736 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 349101011737 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 349101011738 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 349101011739 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 349101011740 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 349101011741 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 349101011742 Cobalt transport protein; Region: CbiQ; cl00463 349101011743 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 349101011744 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 349101011745 Walker A/P-loop; other site 349101011746 ATP binding site [chemical binding]; other site 349101011747 Q-loop/lid; other site 349101011748 ABC transporter signature motif; other site 349101011749 Walker B; other site 349101011750 D-loop; other site 349101011751 H-loop/switch region; other site 349101011752 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 349101011753 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 349101011754 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 349101011755 AAA domain; Region: AAA_27; pfam13514 349101011756 AAA domain; Region: AAA_27; pfam13514 349101011757 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 349101011758 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349101011759 active site 349101011760 metal binding site [ion binding]; metal-binding site 349101011761 DNA binding site [nucleotide binding] 349101011762 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 349101011763 putative FMN binding site [chemical binding]; other site 349101011764 Cache domain; Region: Cache_1; pfam02743 349101011765 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 349101011766 dimer interface [polypeptide binding]; other site 349101011767 phosphorylation site [posttranslational modification] 349101011768 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 349101011769 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 349101011770 ATP binding site [chemical binding]; other site 349101011771 Mg2+ binding site [ion binding]; other site 349101011772 G-X-G motif; other site 349101011773 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 349101011774 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 349101011775 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 349101011776 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349101011777 Walker A/P-loop; other site 349101011778 ATP binding site [chemical binding]; other site 349101011779 Q-loop/lid; other site 349101011780 ABC transporter signature motif; other site 349101011781 Walker B; other site 349101011782 D-loop; other site 349101011783 H-loop/switch region; other site 349101011784 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 349101011785 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 349101011786 N-terminal plug; other site 349101011787 ligand-binding site [chemical binding]; other site 349101011788 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 349101011789 Histidine kinase; Region: HisKA_2; cl06527 349101011790 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 349101011791 ATP binding site [chemical binding]; other site 349101011792 Mg2+ binding site [ion binding]; other site 349101011793 G-X-G motif; other site 349101011794 NAD-dependent deacetylase; Provisional; Region: PRK00481 349101011795 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 349101011796 NAD+ binding site [chemical binding]; other site 349101011797 substrate binding site [chemical binding]; other site 349101011798 Zn binding site [ion binding]; other site 349101011799 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 349101011800 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 349101011801 FeS/SAM binding site; other site 349101011802 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 349101011803 Cupin domain; Region: Cupin_2; cl09118 349101011804 Transglycosylase SLT domain; Region: SLT_2; pfam13406 349101011805 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 349101011806 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 349101011807 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 349101011808 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 349101011809 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 349101011810 peptide binding site [polypeptide binding]; other site 349101011811 dipeptide transporter permease DppB; Provisional; Region: PRK10914 349101011812 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 349101011813 dimer interface [polypeptide binding]; other site 349101011814 conserved gate region; other site 349101011815 putative PBP binding loops; other site 349101011816 ABC-ATPase subunit interface; other site 349101011817 dipeptide transporter; Provisional; Region: PRK10913 349101011818 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 349101011819 dimer interface [polypeptide binding]; other site 349101011820 conserved gate region; other site 349101011821 putative PBP binding loops; other site 349101011822 ABC-ATPase subunit interface; other site 349101011823 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101011824 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 349101011825 Walker A/P-loop; other site 349101011826 ATP binding site [chemical binding]; other site 349101011827 Q-loop/lid; other site 349101011828 ABC transporter signature motif; other site 349101011829 Walker B; other site 349101011830 D-loop; other site 349101011831 H-loop/switch region; other site 349101011832 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349101011833 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 349101011834 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101011835 Walker A/P-loop; other site 349101011836 ATP binding site [chemical binding]; other site 349101011837 Q-loop/lid; other site 349101011838 ABC transporter signature motif; other site 349101011839 Walker B; other site 349101011840 D-loop; other site 349101011841 H-loop/switch region; other site 349101011842 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349101011843 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349101011844 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 349101011845 dimer interface [polypeptide binding]; other site 349101011846 active site 349101011847 metal binding site [ion binding]; metal-binding site 349101011848 glutathione binding site [chemical binding]; other site 349101011849 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 349101011850 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 349101011851 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 349101011852 dimer interface [polypeptide binding]; other site 349101011853 phosphorylation site [posttranslational modification] 349101011854 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 349101011855 ATP binding site [chemical binding]; other site 349101011856 Mg2+ binding site [ion binding]; other site 349101011857 G-X-G motif; other site 349101011858 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 349101011859 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 349101011860 active site 349101011861 phosphorylation site [posttranslational modification] 349101011862 intermolecular recognition site; other site 349101011863 dimerization interface [polypeptide binding]; other site 349101011864 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 349101011865 DNA binding site [nucleotide binding] 349101011866 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 349101011867 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 349101011868 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 349101011869 protein binding site [polypeptide binding]; other site 349101011870 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 349101011871 protein binding site [polypeptide binding]; other site 349101011872 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 349101011873 putative substrate translocation pore; other site 349101011874 D-aminopeptidase; Reviewed; Region: PRK13128 349101011875 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 349101011876 D-aminopeptidase, domain B; Region: DAP_B; pfam07930 349101011877 D-aminopeptidase, domain C; Region: DAP_C; pfam07932 349101011878 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; cd00995 349101011879 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 349101011880 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 349101011881 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101011882 Walker A/P-loop; other site 349101011883 ATP binding site [chemical binding]; other site 349101011884 Q-loop/lid; other site 349101011885 ABC transporter signature motif; other site 349101011886 Walker B; other site 349101011887 D-loop; other site 349101011888 H-loop/switch region; other site 349101011889 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349101011890 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101011891 Walker A/P-loop; other site 349101011892 ATP binding site [chemical binding]; other site 349101011893 Q-loop/lid; other site 349101011894 ABC transporter signature motif; other site 349101011895 Walker B; other site 349101011896 D-loop; other site 349101011897 H-loop/switch region; other site 349101011898 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349101011899 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 349101011900 dimer interface [polypeptide binding]; other site 349101011901 conserved gate region; other site 349101011902 putative PBP binding loops; other site 349101011903 ABC-ATPase subunit interface; other site 349101011904 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349101011905 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 349101011906 dimer interface [polypeptide binding]; other site 349101011907 conserved gate region; other site 349101011908 putative PBP binding loops; other site 349101011909 ABC-ATPase subunit interface; other site 349101011910 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101011911 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 349101011912 Walker A/P-loop; other site 349101011913 ATP binding site [chemical binding]; other site 349101011914 Q-loop/lid; other site 349101011915 ABC transporter signature motif; other site 349101011916 Walker B; other site 349101011917 D-loop; other site 349101011918 H-loop/switch region; other site 349101011919 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349101011920 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349101011921 Walker A/P-loop; other site 349101011922 ATP binding site [chemical binding]; other site 349101011923 Q-loop/lid; other site 349101011924 ABC transporter signature motif; other site 349101011925 Walker B; other site 349101011926 D-loop; other site 349101011927 H-loop/switch region; other site 349101011928 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349101011929 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 349101011930 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; cd00995 349101011931 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 349101011932 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349101011933 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 349101011934 dimer interface [polypeptide binding]; other site 349101011935 conserved gate region; other site 349101011936 putative PBP binding loops; other site 349101011937 ABC-ATPase subunit interface; other site 349101011938 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 349101011939 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 349101011940 dimer interface [polypeptide binding]; other site 349101011941 conserved gate region; other site 349101011942 putative PBP binding loops; other site 349101011943 ABC-ATPase subunit interface; other site 349101011944 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 349101011945 ANTAR domain; Region: ANTAR; cl04297 349101011946 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 349101011947 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 349101011948 aminotransferase; Provisional; Region: PRK06105 349101011949 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 349101011950 inhibitor-cofactor binding pocket; inhibition site 349101011951 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349101011952 catalytic residue [active] 349101011953 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 349101011954 active site 349101011955 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 349101011956 Cytochrome c; Region: Cytochrom_C; cl11414 349101011957 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 349101011958 AMP binding site [chemical binding]; other site 349101011959 metal binding site [ion binding]; metal-binding site 349101011960 active site 349101011961 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101011962 transketolase; Reviewed; Region: PRK05899 349101011963 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 349101011964 TPP-binding site [chemical binding]; other site 349101011965 dimer interface [polypeptide binding]; other site 349101011966 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 349101011967 PYR/PP interface [polypeptide binding]; other site 349101011968 dimer interface [polypeptide binding]; other site 349101011969 TPP binding site [chemical binding]; other site 349101011970 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349101011971 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101011972 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 349101011973 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 349101011974 hypothetical protein; Provisional; Region: PRK08185 349101011975 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 349101011976 intersubunit interface [polypeptide binding]; other site 349101011977 active site 349101011978 zinc binding site [ion binding]; other site 349101011979 Na+ binding site [ion binding]; other site 349101011980 ribulose bisphosphate carboxylase; Provisional; Region: PRK13475 349101011981 Ribulose bisphosphate carboxylase large chain, Form II; Region: RuBisCO_large_II; cd08211 349101011982 dimer interface [polypeptide binding]; other site 349101011983 active site 349101011984 catalytic residue [active] 349101011985 metal binding site [ion binding]; metal-binding site 349101011986 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 349101011987 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 349101011988 ABC-2 type transporter; Region: ABC2_membrane; cl11417 349101011989 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 349101011990 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 349101011991 Walker A/P-loop; other site 349101011992 ATP binding site [chemical binding]; other site 349101011993 Q-loop/lid; other site 349101011994 ABC transporter signature motif; other site 349101011995 Walker B; other site 349101011996 D-loop; other site 349101011997 H-loop/switch region; other site 349101011998 MoxR-like ATPases [General function prediction only]; Region: COG0714 349101011999 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 349101012000 Walker A motif; other site 349101012001 ATP binding site [chemical binding]; other site 349101012002 Walker B motif; other site 349101012003 arginine finger; other site 349101012004 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 349101012005 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 349101012006 metal ion-dependent adhesion site (MIDAS); other site 349101012007 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 349101012008 TPR repeat; Region: TPR_11; pfam13414 349101012009 Oxygen tolerance; Region: BatD; pfam13584 349101012010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101012011 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349101012012 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 349101012013 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 349101012014 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 349101012015 PYR/PP interface [polypeptide binding]; other site 349101012016 dimer interface [polypeptide binding]; other site 349101012017 TPP binding site [chemical binding]; other site 349101012018 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 349101012019 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 349101012020 TPP-binding site [chemical binding]; other site 349101012021 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 349101012022 KduI/IolB family; Region: KduI; cl01508 349101012023 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 349101012024 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 349101012025 Walker A/P-loop; other site 349101012026 ATP binding site [chemical binding]; other site 349101012027 Q-loop/lid; other site 349101012028 ABC transporter signature motif; other site 349101012029 Walker B; other site 349101012030 D-loop; other site 349101012031 H-loop/switch region; other site 349101012032 TOBE domain; Region: TOBE_2; cl01440 349101012033 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349101012034 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 349101012035 dimer interface [polypeptide binding]; other site 349101012036 conserved gate region; other site 349101012037 putative PBP binding loops; other site 349101012038 ABC-ATPase subunit interface; other site 349101012039 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 349101012040 dimer interface [polypeptide binding]; other site 349101012041 conserved gate region; other site 349101012042 putative PBP binding loops; other site 349101012043 ABC-ATPase subunit interface; other site 349101012044 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101012045 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349101012046 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 349101012047 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 349101012048 PhoU domain; Region: PhoU; pfam01895 349101012049 PhoU domain; Region: PhoU; pfam01895 349101012050 choline dehydrogenase; Validated; Region: PRK02106 349101012051 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101012052 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 349101012053 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 349101012054 TM-ABC transporter signature motif; other site 349101012055 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 349101012056 TM-ABC transporter signature motif; other site 349101012057 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 349101012058 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 349101012059 Walker A/P-loop; other site 349101012060 ATP binding site [chemical binding]; other site 349101012061 Q-loop/lid; other site 349101012062 ABC transporter signature motif; other site 349101012063 Walker B; other site 349101012064 D-loop; other site 349101012065 H-loop/switch region; other site 349101012066 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 349101012067 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 349101012068 Walker A/P-loop; other site 349101012069 ATP binding site [chemical binding]; other site 349101012070 Q-loop/lid; other site 349101012071 ABC transporter signature motif; other site 349101012072 Walker B; other site 349101012073 D-loop; other site 349101012074 H-loop/switch region; other site 349101012075 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 349101012076 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 349101012077 putative ligand binding site [chemical binding]; other site 349101012078 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349101012079 Helix-turn-helix domains; Region: HTH; cl00088 349101012080 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101012081 dimerization interface [polypeptide binding]; other site 349101012082 NMT1-like family; Region: NMT1_2; cl15260 349101012083 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 349101012084 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 349101012085 active site 349101012086 intersubunit interface [polypeptide binding]; other site 349101012087 catalytic residue [active] 349101012088 Response regulator receiver domain; Region: Response_reg; pfam00072 349101012089 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 349101012090 active site 349101012091 phosphorylation site [posttranslational modification] 349101012092 intermolecular recognition site; other site 349101012093 dimerization interface [polypeptide binding]; other site 349101012094 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 349101012095 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349101012096 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349101012097 dimer interface [polypeptide binding]; other site 349101012098 putative CheW interface [polypeptide binding]; other site 349101012099 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 349101012100 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349101012101 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 349101012102 EamA-like transporter family; Region: EamA; cl01037 349101012103 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349101012104 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349101012105 oxidoreductase; Validated; Region: PRK05717 349101012106 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349101012107 NAD(P) binding site [chemical binding]; other site 349101012108 active site 349101012109 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349101012110 Helix-turn-helix domains; Region: HTH; cl00088 349101012111 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 349101012112 Protein export membrane protein; Region: SecD_SecF; cl14618 349101012113 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 349101012114 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349101012115 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349101012116 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 349101012117 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 349101012118 Walker A motif; other site 349101012119 ATP binding site [chemical binding]; other site 349101012120 Walker B motif; other site 349101012121 arginine finger; other site 349101012122 Helix-turn-helix domains; Region: HTH; cl00088 349101012123 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 349101012124 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 349101012125 DNA binding residues [nucleotide binding] 349101012126 dimerization interface [polypeptide binding]; other site 349101012127 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 349101012128 MatE; Region: MatE; cl10513 349101012129 Low molecular weight phosphatase family; Region: LMWPc; cd00115 349101012130 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 349101012131 active site 349101012132 Rhomboid family; Region: Rhomboid; cl11446 349101012133 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; cl01155 349101012134 Protein of unknown function (DUF465); Region: DUF465; cl01070 349101012135 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 349101012136 transmembrane helices; other site 349101012137 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 349101012138 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 349101012139 Cupin domain; Region: Cupin_2; cl09118 349101012140 LrgB-like family; Region: LrgB; cl00596 349101012141 LrgA family; Region: LrgA; cl00608 349101012142 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 349101012143 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 349101012144 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 349101012145 dimer interface [polypeptide binding]; other site 349101012146 conserved gate region; other site 349101012147 putative PBP binding loops; other site 349101012148 ABC-ATPase subunit interface; other site 349101012149 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 349101012150 dimer interface [polypeptide binding]; other site 349101012151 conserved gate region; other site 349101012152 putative PBP binding loops; other site 349101012153 ABC-ATPase subunit interface; other site 349101012154 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 349101012155 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349101012156 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349101012157 Walker A/P-loop; other site 349101012158 ATP binding site [chemical binding]; other site 349101012159 Q-loop/lid; other site 349101012160 ABC transporter signature motif; other site 349101012161 Walker B; other site 349101012162 D-loop; other site 349101012163 H-loop/switch region; other site 349101012164 TOBE domain; Region: TOBE_2; cl01440 349101012165 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349101012166 DNA-binding site [nucleotide binding]; DNA binding site 349101012167 FCD domain; Region: FCD; cl11656 349101012168 Predicted transcriptional regulator [Transcription]; Region: COG1959 349101012169 Helix-turn-helix domains; Region: HTH; cl00088 349101012170 Predicted permeases [General function prediction only]; Region: RarD; COG2962