-- dump date 20140619_081815 -- class Genbank::misc_feature -- table misc_feature_note -- id note 536056000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 536056000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 536056000003 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 536056000004 Walker A motif; other site 536056000005 ATP binding site [chemical binding]; other site 536056000006 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 536056000007 Walker B motif; other site 536056000008 arginine finger; other site 536056000009 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 536056000010 DnaA box-binding interface [nucleotide binding]; other site 536056000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 536056000012 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 536056000013 putative DNA binding surface [nucleotide binding]; other site 536056000014 dimer interface [polypeptide binding]; other site 536056000015 beta-clamp/clamp loader binding surface; other site 536056000016 beta-clamp/translesion DNA polymerase binding surface; other site 536056000017 recF protein; Region: recf; TIGR00611 536056000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056000019 Walker A/P-loop; other site 536056000020 ATP binding site [chemical binding]; other site 536056000021 Q-loop/lid; other site 536056000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056000023 ABC transporter signature motif; other site 536056000024 Walker B; other site 536056000025 D-loop; other site 536056000026 H-loop/switch region; other site 536056000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 536056000028 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 536056000029 Mg2+ binding site [ion binding]; other site 536056000030 G-X-G motif; other site 536056000031 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 536056000032 anchoring element; other site 536056000033 dimer interface [polypeptide binding]; other site 536056000034 ATP binding site [chemical binding]; other site 536056000035 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 536056000036 active site 536056000037 putative metal-binding site [ion binding]; other site 536056000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 536056000039 hypothetical protein; Provisional; Region: PRK11426 536056000040 sugar phosphate phosphatase; Provisional; Region: PRK10513 536056000041 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 536056000042 active site 536056000043 motif I; other site 536056000044 motif II; other site 536056000045 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 536056000046 hypothetical protein; Provisional; Region: PRK10215 536056000047 Transcriptional regulators [Transcription]; Region: FadR; COG2186 536056000048 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056000049 DNA-binding site [nucleotide binding]; DNA binding site 536056000050 FCD domain; Region: FCD; pfam07729 536056000051 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 536056000052 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 536056000053 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 536056000054 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 536056000055 active site 536056000056 intersubunit interface [polypeptide binding]; other site 536056000057 catalytic residue [active] 536056000058 galactonate dehydratase; Provisional; Region: PRK14017 536056000059 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 536056000060 putative active site pocket [active] 536056000061 putative metal binding site [ion binding]; other site 536056000062 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 536056000063 D-galactonate transporter; Region: 2A0114; TIGR00893 536056000064 putative substrate translocation pore; other site 536056000065 putative oxidoreductase; Provisional; Region: PRK11445 536056000066 hypothetical protein; Provisional; Region: PRK07236 536056000067 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 536056000068 hypothetical protein; Provisional; Region: PRK11616 536056000069 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 536056000070 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 536056000071 putative dimer interface [polypeptide binding]; other site 536056000072 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 536056000073 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 536056000074 putative dimer interface [polypeptide binding]; other site 536056000075 putative transporter; Validated; Region: PRK03818 536056000076 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 536056000077 TrkA-C domain; Region: TrkA_C; pfam02080 536056000078 TrkA-C domain; Region: TrkA_C; pfam02080 536056000079 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 536056000080 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 536056000081 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056000082 DNA-binding site [nucleotide binding]; DNA binding site 536056000083 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 536056000084 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 536056000085 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056000086 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536056000087 putative transporter; Provisional; Region: PRK10484 536056000088 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 536056000089 Na binding site [ion binding]; other site 536056000090 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 536056000091 Sulfatase; Region: Sulfatase; pfam00884 536056000092 Predicted membrane protein [Function unknown]; Region: COG2149 536056000093 Domain of unknown function (DUF202); Region: DUF202; pfam02656 536056000094 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 536056000095 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 536056000096 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 536056000097 putative substrate translocation pore; other site 536056000098 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 536056000099 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 536056000100 PYR/PP interface [polypeptide binding]; other site 536056000101 dimer interface [polypeptide binding]; other site 536056000102 TPP binding site [chemical binding]; other site 536056000103 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 536056000104 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 536056000105 TPP-binding site [chemical binding]; other site 536056000106 dimer interface [polypeptide binding]; other site 536056000107 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 536056000108 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 536056000109 putative valine binding site [chemical binding]; other site 536056000110 dimer interface [polypeptide binding]; other site 536056000111 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 536056000112 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 536056000113 active site 536056000114 phosphorylation site [posttranslational modification] 536056000115 intermolecular recognition site; other site 536056000116 dimerization interface [polypeptide binding]; other site 536056000117 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 536056000118 DNA binding residues [nucleotide binding] 536056000119 dimerization interface [polypeptide binding]; other site 536056000120 sensory histidine kinase UhpB; Provisional; Region: PRK11644 536056000121 MASE1; Region: MASE1; pfam05231 536056000122 Histidine kinase; Region: HisKA_3; pfam07730 536056000123 regulatory protein UhpC; Provisional; Region: PRK11663 536056000124 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 536056000125 putative substrate translocation pore; other site 536056000126 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 536056000127 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 536056000128 putative substrate translocation pore; other site 536056000129 cryptic adenine deaminase; Provisional; Region: PRK10027 536056000130 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 536056000131 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 536056000132 active site 536056000133 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 536056000134 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 536056000135 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 536056000136 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 536056000137 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 536056000138 putative substrate translocation pore; other site 536056000139 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 536056000140 cytoplasmic membrane lipoprotein-28; Provisional; Region: PRK09861 536056000141 lipoprotein, YaeC family; Region: TIGR00363 536056000142 EamA-like transporter family; Region: EamA; pfam00892 536056000143 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 536056000144 EamA-like transporter family; Region: EamA; pfam00892 536056000145 sugar efflux transporter; Region: 2A0120; TIGR00899 536056000146 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 536056000147 putative substrate translocation pore; other site 536056000148 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 536056000149 putative transporter; Provisional; Region: PRK11462 536056000150 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 536056000151 putative alpha-glucosidase; Provisional; Region: PRK10658 536056000152 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 536056000153 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 536056000154 active site 536056000155 homotrimer interface [polypeptide binding]; other site 536056000156 catalytic site [active] 536056000157 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 536056000158 AsmA family; Region: AsmA; pfam05170 536056000159 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 536056000160 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 536056000161 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 536056000162 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 536056000163 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 536056000164 generic binding surface II; other site 536056000165 ssDNA binding site; other site 536056000166 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 536056000167 ATP binding site [chemical binding]; other site 536056000168 putative Mg++ binding site [ion binding]; other site 536056000169 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 536056000170 nucleotide binding region [chemical binding]; other site 536056000171 ATP-binding site [chemical binding]; other site 536056000172 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 536056000173 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 536056000174 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 536056000175 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 536056000176 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536056000177 Zn2+ binding site [ion binding]; other site 536056000178 Mg2+ binding site [ion binding]; other site 536056000179 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 536056000180 synthetase active site [active] 536056000181 NTP binding site [chemical binding]; other site 536056000182 metal binding site [ion binding]; metal-binding site 536056000183 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 536056000184 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 536056000185 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 536056000186 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 536056000187 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 536056000188 catalytic site [active] 536056000189 G-X2-G-X-G-K; other site 536056000190 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 536056000191 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 536056000192 nucleotide binding pocket [chemical binding]; other site 536056000193 K-X-D-G motif; other site 536056000194 catalytic site [active] 536056000195 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 536056000196 Predicted membrane protein [Function unknown]; Region: COG2860 536056000197 UPF0126 domain; Region: UPF0126; pfam03458 536056000198 UPF0126 domain; Region: UPF0126; pfam03458 536056000199 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 536056000200 BRO family, N-terminal domain; Region: Bro-N; pfam02498 536056000201 hypothetical protein; Provisional; Region: PRK11820 536056000202 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 536056000203 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 536056000204 ribonuclease PH; Reviewed; Region: rph; PRK00173 536056000205 Ribonuclease PH; Region: RNase_PH_bact; cd11362 536056000206 hexamer interface [polypeptide binding]; other site 536056000207 active site 536056000208 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536056000209 active site 536056000210 division inhibitor protein; Provisional; Region: slmA; PRK09480 536056000211 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536056000212 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 536056000213 trimer interface [polypeptide binding]; other site 536056000214 active site 536056000215 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 536056000216 Flavoprotein; Region: Flavoprotein; pfam02441 536056000217 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 536056000218 hypothetical protein; Reviewed; Region: PRK00024 536056000219 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 536056000220 MPN+ (JAMM) motif; other site 536056000221 Zinc-binding site [ion binding]; other site 536056000222 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 536056000223 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 536056000224 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 536056000225 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 536056000226 DNA binding site [nucleotide binding] 536056000227 catalytic residue [active] 536056000228 H2TH interface [polypeptide binding]; other site 536056000229 putative catalytic residues [active] 536056000230 turnover-facilitating residue; other site 536056000231 intercalation triad [nucleotide binding]; other site 536056000232 8OG recognition residue [nucleotide binding]; other site 536056000233 putative reading head residues; other site 536056000234 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 536056000235 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 536056000236 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 536056000237 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 536056000238 active site 536056000239 (T/H)XGH motif; other site 536056000240 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 536056000241 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 536056000242 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 536056000243 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 536056000244 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 536056000245 putative active site [active] 536056000246 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 536056000247 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536056000248 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 536056000249 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 536056000250 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 536056000251 putative ADP-binding pocket [chemical binding]; other site 536056000252 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 536056000253 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 536056000254 Ligand binding site; other site 536056000255 metal-binding site 536056000256 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 536056000257 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 536056000258 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 536056000259 Ligand binding site; other site 536056000260 metal-binding site 536056000261 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 536056000262 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10359 536056000263 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK09822 536056000264 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 536056000265 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 536056000266 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 536056000267 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 536056000268 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 536056000269 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 536056000270 putative active site [active] 536056000271 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 536056000272 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 536056000273 putative active site [active] 536056000274 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 536056000275 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 536056000276 NADP binding site [chemical binding]; other site 536056000277 homopentamer interface [polypeptide binding]; other site 536056000278 substrate binding site [chemical binding]; other site 536056000279 active site 536056000280 hypothetical protein; Provisional; Region: PRK11346 536056000281 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 536056000282 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 536056000283 substrate-cofactor binding pocket; other site 536056000284 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056000285 catalytic residue [active] 536056000286 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 536056000287 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 536056000288 NAD(P) binding site [chemical binding]; other site 536056000289 putative glycosyl transferase; Provisional; Region: PRK10073 536056000290 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 536056000291 active site 536056000292 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 536056000293 NodB motif; other site 536056000294 putative active site [active] 536056000295 putative catalytic site [active] 536056000296 Zn binding site [ion binding]; other site 536056000297 AmiB activator; Provisional; Region: PRK11637 536056000298 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 536056000299 Peptidase family M23; Region: Peptidase_M23; pfam01551 536056000300 phosphoglyceromutase; Provisional; Region: PRK05434 536056000301 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 536056000302 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 536056000303 active site residue [active] 536056000304 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 536056000305 GSH binding site [chemical binding]; other site 536056000306 catalytic residues [active] 536056000307 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; cd00557 536056000308 SecA binding site; other site 536056000309 Preprotein binding site; other site 536056000310 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 536056000311 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 536056000312 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 536056000313 serine acetyltransferase; Provisional; Region: cysE; PRK11132 536056000314 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 536056000315 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 536056000316 trimer interface [polypeptide binding]; other site 536056000317 active site 536056000318 substrate binding site [chemical binding]; other site 536056000319 CoA binding site [chemical binding]; other site 536056000320 putative rRNA methylase; Provisional; Region: PRK10358 536056000321 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 536056000322 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 536056000323 phosphate binding site [ion binding]; other site 536056000324 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 536056000325 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056000326 DNA-binding site [nucleotide binding]; DNA binding site 536056000327 FCD domain; Region: FCD; pfam07729 536056000328 L-lactate permease; Provisional; Region: PRK10420 536056000329 glycolate transporter; Provisional; Region: PRK09695 536056000330 hypothetical protein; Provisional; Region: PRK11020 536056000331 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 536056000332 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 536056000333 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 536056000334 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 536056000335 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 536056000336 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 536056000337 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 536056000338 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 536056000339 active site 536056000340 P-loop; other site 536056000341 phosphorylation site [posttranslational modification] 536056000342 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 536056000343 active site 536056000344 phosphorylation site [posttranslational modification] 536056000345 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 536056000346 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 536056000347 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536056000348 HlyD family secretion protein; Region: HlyD_3; pfam13437 536056000349 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 536056000350 putative lyase; Provisional; Region: PRK09687 536056000351 PAAR motif; Region: PAAR_motif; cl15808 536056000352 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 536056000353 RHS Repeat; Region: RHS_repeat; pfam05593 536056000354 RHS Repeat; Region: RHS_repeat; pfam05593 536056000355 RHS Repeat; Region: RHS_repeat; pfam05593 536056000356 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 536056000357 RHS Repeat; Region: RHS_repeat; pfam05593 536056000358 RHS Repeat; Region: RHS_repeat; pfam05593 536056000359 RHS protein; Region: RHS; pfam03527 536056000360 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 536056000361 putative glutathione S-transferase; Provisional; Region: PRK10357 536056000362 GST_N family, unknown subfamily 3; 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_3; cd03049 536056000363 putative C-terminal domain interface [polypeptide binding]; other site 536056000364 putative GSH binding site (G-site) [chemical binding]; other site 536056000365 putative dimer interface [polypeptide binding]; other site 536056000366 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 536056000367 dimer interface [polypeptide binding]; other site 536056000368 N-terminal domain interface [polypeptide binding]; other site 536056000369 putative substrate binding pocket (H-site) [chemical binding]; other site 536056000370 selenocysteine synthase; Provisional; Region: PRK04311 536056000371 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 536056000372 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 536056000373 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536056000374 catalytic residue [active] 536056000375 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 536056000376 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 536056000377 G1 box; other site 536056000378 putative GEF interaction site [polypeptide binding]; other site 536056000379 GTP/Mg2+ binding site [chemical binding]; other site 536056000380 Switch I region; other site 536056000381 G2 box; other site 536056000382 G3 box; other site 536056000383 Switch II region; other site 536056000384 G4 box; other site 536056000385 G5 box; other site 536056000386 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 536056000387 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 536056000388 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 536056000389 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 536056000390 putative alcohol dehydrogenase; Provisional; Region: PRK09860 536056000391 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 536056000392 dimer interface [polypeptide binding]; other site 536056000393 active site 536056000394 metal binding site [ion binding]; metal-binding site 536056000395 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 536056000396 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 536056000397 NAD(P) binding site [chemical binding]; other site 536056000398 catalytic residues [active] 536056000399 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 536056000400 FlxA-like protein; Region: FlxA; pfam14282 536056000401 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 536056000402 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536056000403 HlyD family secretion protein; Region: HlyD_3; pfam13437 536056000404 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536056000405 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056000406 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 536056000407 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 536056000408 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 536056000409 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; cd00398 536056000410 intersubunit interface [polypeptide binding]; other site 536056000411 active site 536056000412 Zn2+ binding site [ion binding]; other site 536056000413 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 536056000414 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 536056000415 AP (apurinic/apyrimidinic) site pocket; other site 536056000416 DNA interaction; other site 536056000417 Metal-binding active site; metal-binding site 536056000418 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 536056000419 active site 536056000420 dimer interface [polypeptide binding]; other site 536056000421 magnesium binding site [ion binding]; other site 536056000422 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 536056000423 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 536056000424 putative N- and C-terminal domain interface [polypeptide binding]; other site 536056000425 putative active site [active] 536056000426 MgATP binding site [chemical binding]; other site 536056000427 catalytic site [active] 536056000428 metal binding site [ion binding]; metal-binding site 536056000429 putative xylulose binding site [chemical binding]; other site 536056000430 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 536056000431 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 536056000432 L-dehydroascorbate transporter large permease subunit; Provisional; Region: PRK15060 536056000433 DctM-like transporters; Region: DctM; pfam06808 536056000434 2,3-diketo-L-gulonate TRAP transporter small permease protein YiaM; Provisional; Region: PRK09877 536056000435 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 536056000436 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 536056000437 Transcriptional regulator [Transcription]; Region: IclR; COG1414 536056000438 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 536056000439 Bacterial transcriptional regulator; Region: IclR; pfam01614 536056000440 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 536056000441 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 536056000442 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 536056000443 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 536056000444 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056000445 homodimer interface [polypeptide binding]; other site 536056000446 catalytic residue [active] 536056000447 alpha-amylase; Reviewed; Region: malS; PRK09505 536056000448 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 536056000449 active site 536056000450 catalytic site [active] 536056000451 hypothetical protein; Provisional; Region: PRK10356 536056000452 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 536056000453 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 536056000454 putative dimerization interface [polypeptide binding]; other site 536056000455 Transcriptional regulators [Transcription]; Region: PurR; COG1609 536056000456 putative ligand binding site [chemical binding]; other site 536056000457 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056000458 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536056000459 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056000460 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536056000461 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 536056000462 TM-ABC transporter signature motif; other site 536056000463 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 536056000464 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 536056000465 Walker A/P-loop; other site 536056000466 ATP binding site [chemical binding]; other site 536056000467 Q-loop/lid; other site 536056000468 ABC transporter signature motif; other site 536056000469 Walker B; other site 536056000470 D-loop; other site 536056000471 H-loop/switch region; other site 536056000472 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 536056000473 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 536056000474 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 536056000475 putative ligand binding site [chemical binding]; other site 536056000476 xylose isomerase; Provisional; Region: PRK05474 536056000477 xylose isomerase; Region: xylose_isom_A; TIGR02630 536056000478 xylulokinase; Provisional; Region: PRK15027 536056000479 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 536056000480 N- and C-terminal domain interface [polypeptide binding]; other site 536056000481 active site 536056000482 MgATP binding site [chemical binding]; other site 536056000483 catalytic site [active] 536056000484 metal binding site [ion binding]; metal-binding site 536056000485 xylulose binding site [chemical binding]; other site 536056000486 homodimer interface [polypeptide binding]; other site 536056000487 hypothetical protein; Provisional; Region: PRK11403 536056000488 yiaA/B two helix domain; Region: YiaAB; pfam05360 536056000489 hypothetical protein; Provisional; Region: PRK11383 536056000490 yiaA/B two helix domain; Region: YiaAB; pfam05360 536056000491 yiaA/B two helix domain; Region: YiaAB; pfam05360 536056000492 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 536056000493 Acyltransferase family; Region: Acyl_transf_3; pfam01757 536056000494 YsaB-like lipoprotein; Region: YsaB; pfam13983 536056000495 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 536056000496 dimer interface [polypeptide binding]; other site 536056000497 motif 1; other site 536056000498 active site 536056000499 motif 2; other site 536056000500 motif 3; other site 536056000501 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 536056000502 DALR anticodon binding domain; Region: DALR_1; pfam05746 536056000503 anticodon binding site; other site 536056000504 tRNA binding surface [nucleotide binding]; other site 536056000505 putative transposase OrfB; Reviewed; Region: PHA02517 536056000506 HTH-like domain; Region: HTH_21; pfam13276 536056000507 Integrase core domain; Region: rve; pfam00665 536056000508 Integrase core domain; Region: rve_2; pfam13333 536056000509 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 536056000510 Helix-turn-helix domain; Region: HTH_28; pfam13518 536056000511 Helix-turn-helix domain; Region: HTH_28; pfam13518 536056000512 small toxic polypeptide; Provisional; Region: PRK09759 536056000513 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 536056000514 DNA-binding site [nucleotide binding]; DNA binding site 536056000515 RNA-binding motif; other site 536056000516 Predicted transcriptional regulator [Transcription]; Region: COG2944 536056000517 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 536056000518 non-specific DNA binding site [nucleotide binding]; other site 536056000519 salt bridge; other site 536056000520 sequence-specific DNA binding site [nucleotide binding]; other site 536056000521 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 536056000522 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 536056000523 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 536056000524 dimerization interface [polypeptide binding]; other site 536056000525 ligand binding site [chemical binding]; other site 536056000526 NADP binding site [chemical binding]; other site 536056000527 catalytic site [active] 536056000528 putative outer membrane lipoprotein; Provisional; Region: PRK10510 536056000529 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536056000530 ligand binding site [chemical binding]; other site 536056000531 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 536056000532 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 536056000533 molybdopterin cofactor binding site [chemical binding]; other site 536056000534 substrate binding site [chemical binding]; other site 536056000535 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 536056000536 molybdopterin cofactor binding site; other site 536056000537 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 536056000538 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536056000539 Coenzyme A binding pocket [chemical binding]; other site 536056000540 3-methyl-adenine DNA glycosylase I; Provisional; Region: PRK10353 536056000541 Autotransporter protein or domain, integral membrane beta-barrel involved in protein secretion [Cell motility and secretion]; Region: COG5571 536056000542 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 536056000543 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 536056000544 putative substrate translocation pore; other site 536056000545 phosphoethanolamine transferase; Provisional; Region: PRK11560 536056000546 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 536056000547 Sulfatase; Region: Sulfatase; pfam00884 536056000548 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 536056000549 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 536056000550 peptide binding site [polypeptide binding]; other site 536056000551 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 536056000552 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 536056000553 dimer interface [polypeptide binding]; other site 536056000554 conserved gate region; other site 536056000555 putative PBP binding loops; other site 536056000556 ABC-ATPase subunit interface; other site 536056000557 dipeptide transporter; Provisional; Region: PRK10913 536056000558 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 536056000559 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 536056000560 dimer interface [polypeptide binding]; other site 536056000561 conserved gate region; other site 536056000562 putative PBP binding loops; other site 536056000563 ABC-ATPase subunit interface; other site 536056000564 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 536056000565 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536056000566 Walker A/P-loop; other site 536056000567 ATP binding site [chemical binding]; other site 536056000568 Q-loop/lid; other site 536056000569 ABC transporter signature motif; other site 536056000570 Walker B; other site 536056000571 D-loop; other site 536056000572 H-loop/switch region; other site 536056000573 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 536056000574 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 536056000575 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536056000576 Walker A/P-loop; other site 536056000577 ATP binding site [chemical binding]; other site 536056000578 Q-loop/lid; other site 536056000579 ABC transporter signature motif; other site 536056000580 Walker B; other site 536056000581 D-loop; other site 536056000582 H-loop/switch region; other site 536056000583 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 536056000584 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 536056000585 serine transporter; Region: stp; TIGR00814 536056000586 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 536056000587 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 536056000588 celllulose biosynthesis operon protein BcsF/YhjT; Region: cellullose_BcsF; TIGR03493 536056000589 cellulose biosynthesis protein BcsE; Provisional; Region: PRK15045 536056000590 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 536056000591 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 536056000592 cell division protein; Provisional; Region: PRK10037 536056000593 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 536056000594 P-loop; other site 536056000595 Magnesium ion binding site [ion binding]; other site 536056000596 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 536056000597 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 536056000598 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 536056000599 DXD motif; other site 536056000600 PilZ domain; Region: PilZ; pfam07238 536056000601 cellulose synthase regulator protein; Provisional; Region: PRK11114 536056000602 endo-1,4-D-glucanase; Provisional; Region: PRK11097 536056000603 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 536056000604 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 536056000605 binding surface 536056000606 TPR motif; other site 536056000607 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 536056000608 binding surface 536056000609 TPR motif; other site 536056000610 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 536056000611 putative diguanylate cyclase; Provisional; Region: PRK13561 536056000612 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536056000613 metal binding site [ion binding]; metal-binding site 536056000614 active site 536056000615 I-site; other site 536056000616 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 536056000617 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 536056000618 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 536056000619 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 536056000620 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 536056000621 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 536056000622 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 536056000623 substrate binding site [chemical binding]; other site 536056000624 ATP binding site [chemical binding]; other site 536056000625 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 536056000626 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 536056000627 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 536056000628 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 536056000629 metabolite-proton symporter; Region: 2A0106; TIGR00883 536056000630 putative substrate translocation pore; other site 536056000631 inner membrane protein YhjD; Region: TIGR00766 536056000632 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536056000633 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056000634 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_3; cd08472 536056000635 putative effector binding pocket; other site 536056000636 putative dimerization interface [polypeptide binding]; other site 536056000637 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 536056000638 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 536056000639 DNA binding residues [nucleotide binding] 536056000640 dimerization interface [polypeptide binding]; other site 536056000641 trehalase; Provisional; Region: treF; PRK13270 536056000642 Trehalase; Region: Trehalase; pfam01204 536056000643 Haem-binding domain; Region: Haem_bd; pfam14376 536056000644 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 536056000645 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 536056000646 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056000647 catalytic residue [active] 536056000648 DNA-binding transcriptional regulator GadX; Provisional; Region: PRK09978 536056000649 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056000650 transcriptional regulator YdeO; Provisional; Region: PRK09940 536056000651 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056000652 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 536056000653 Protein export membrane protein; Region: SecD_SecF; cl14618 536056000654 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 536056000655 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536056000656 HlyD family secretion protein; Region: HlyD_3; pfam13437 536056000657 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 536056000658 pyruvate kinase; Provisional; Region: PRK05826 536056000659 acid-resistance membrane protein; Provisional; Region: PRK10209 536056000660 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 536056000661 acid-resistance protein; Provisional; Region: PRK10208 536056000662 acid-resistance protein; Provisional; Region: hdeB; PRK11566 536056000663 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 536056000664 MgtC family; Region: MgtC; pfam02308 536056000665 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 536056000666 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 536056000667 DNA binding residues [nucleotide binding] 536056000668 dimerization interface [polypeptide binding]; other site 536056000669 outer membrane lipoprotein, Slp family; Region: slp; TIGR00752 536056000670 Transposase domain (DUF772); Region: DUF772; pfam05598 536056000671 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 536056000672 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 536056000673 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 536056000674 ArsC family; Region: ArsC; pfam03960 536056000675 catalytic residues [active] 536056000676 arsenical pump membrane protein; Provisional; Region: PRK15445 536056000677 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 536056000678 transmembrane helices; other site 536056000679 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 536056000680 dimerization interface [polypeptide binding]; other site 536056000681 putative DNA binding site [nucleotide binding]; other site 536056000682 putative Zn2+ binding site [ion binding]; other site 536056000683 glutathione reductase; Validated; Region: PRK06116 536056000684 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 536056000685 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536056000686 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 536056000687 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 536056000688 oligopeptidase A; Provisional; Region: PRK10911 536056000689 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 536056000690 active site 536056000691 Zn binding site [ion binding]; other site 536056000692 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 536056000693 S-adenosylmethionine binding site [chemical binding]; other site 536056000694 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 536056000695 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 536056000696 POT family; Region: PTR2; pfam00854 536056000697 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 536056000698 Ligand Binding Site [chemical binding]; other site 536056000699 universal stress protein UspB; Provisional; Region: PRK04960 536056000700 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 536056000701 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 536056000702 Predicted flavoproteins [General function prediction only]; Region: COG2081 536056000703 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 536056000704 Protein of unknown function (DUF2776); Region: DUF2776; pfam10951 536056000705 Domain of unknown function (DUF4049); Region: DUF4049; pfam13258 536056000706 HlyD family secretion protein; Region: HlyD; pfam00529 536056000707 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536056000708 HlyD family secretion protein; Region: HlyD_3; pfam13437 536056000709 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 536056000710 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 536056000711 Walker A/P-loop; other site 536056000712 ATP binding site [chemical binding]; other site 536056000713 Q-loop/lid; other site 536056000714 ABC transporter signature motif; other site 536056000715 Walker B; other site 536056000716 D-loop; other site 536056000717 H-loop/switch region; other site 536056000718 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 536056000719 Walker A/P-loop; other site 536056000720 ATP binding site [chemical binding]; other site 536056000721 Q-loop/lid; other site 536056000722 ABC transporter signature motif; other site 536056000723 Walker B; other site 536056000724 D-loop; other site 536056000725 H-loop/switch region; other site 536056000726 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 536056000727 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 536056000728 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 536056000729 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 536056000730 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 536056000731 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 536056000732 Transposase [DNA replication, recombination, and repair]; Region: COG5433 536056000733 Transposase [DNA replication, recombination, and repair]; Region: COG5433 536056000734 PAAR motif; Region: PAAR_motif; cl15808 536056000735 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 536056000736 RHS Repeat; Region: RHS_repeat; pfam05593 536056000737 RHS Repeat; Region: RHS_repeat; pfam05593 536056000738 RHS Repeat; Region: RHS_repeat; pfam05593 536056000739 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 536056000740 RHS Repeat; Region: RHS_repeat; pfam05593 536056000741 RHS Repeat; Region: RHS_repeat; pfam05593 536056000742 RHS protein; Region: RHS; pfam03527 536056000743 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 536056000744 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 536056000745 nickel responsive regulator; Provisional; Region: PRK02967 536056000746 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 536056000747 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 536056000748 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536056000749 Walker A/P-loop; other site 536056000750 ATP binding site [chemical binding]; other site 536056000751 Q-loop/lid; other site 536056000752 ABC transporter signature motif; other site 536056000753 Walker B; other site 536056000754 D-loop; other site 536056000755 H-loop/switch region; other site 536056000756 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 536056000757 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536056000758 Walker A/P-loop; other site 536056000759 ATP binding site [chemical binding]; other site 536056000760 Q-loop/lid; other site 536056000761 ABC transporter signature motif; other site 536056000762 Walker B; other site 536056000763 D-loop; other site 536056000764 H-loop/switch region; other site 536056000765 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 536056000766 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 536056000767 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 536056000768 dimer interface [polypeptide binding]; other site 536056000769 conserved gate region; other site 536056000770 putative PBP binding loops; other site 536056000771 ABC-ATPase subunit interface; other site 536056000772 nickel transporter permease NikB; Provisional; Region: PRK10352 536056000773 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 536056000774 dimer interface [polypeptide binding]; other site 536056000775 conserved gate region; other site 536056000776 putative PBP binding loops; other site 536056000777 ABC-ATPase subunit interface; other site 536056000778 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 536056000779 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 536056000780 substrate binding site [chemical binding]; other site 536056000781 holo-(acyl carrier protein) synthase 2; Provisional; Region: PRK10351 536056000782 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 536056000783 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 536056000784 Domain of unknown function DUF20; Region: UPF0118; pfam01594 536056000785 major facilitator superfamily transporter; Provisional; Region: PRK05122 536056000786 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 536056000787 putative substrate translocation pore; other site 536056000788 hypothetical protein; Provisional; Region: PRK11615 536056000789 hypothetical protein; Provisional; Region: PRK11212 536056000790 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 536056000791 CPxP motif; other site 536056000792 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 536056000793 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 536056000794 metal-binding site [ion binding] 536056000795 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 536056000796 Predicted membrane protein [Function unknown]; Region: COG3714 536056000797 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 536056000798 hypothetical protein; Provisional; Region: PRK10910 536056000799 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 536056000800 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 536056000801 S-adenosylmethionine binding site [chemical binding]; other site 536056000802 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 536056000803 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 536056000804 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 536056000805 P loop; other site 536056000806 GTP binding site [chemical binding]; other site 536056000807 cell division protein FtsE; Provisional; Region: PRK10908 536056000808 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056000809 Walker A/P-loop; other site 536056000810 ATP binding site [chemical binding]; other site 536056000811 Q-loop/lid; other site 536056000812 ABC transporter signature motif; other site 536056000813 Walker B; other site 536056000814 D-loop; other site 536056000815 H-loop/switch region; other site 536056000816 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 536056000817 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 536056000818 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 536056000819 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536056000820 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 536056000821 DNA binding residues [nucleotide binding] 536056000822 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 536056000823 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 536056000824 dimerization interface [polypeptide binding]; other site 536056000825 ligand binding site [chemical binding]; other site 536056000826 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 536056000827 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 536056000828 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 536056000829 dimerization interface [polypeptide binding]; other site 536056000830 ligand binding site [chemical binding]; other site 536056000831 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536056000832 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 536056000833 TM-ABC transporter signature motif; other site 536056000834 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 536056000835 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 536056000836 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 536056000837 TM-ABC transporter signature motif; other site 536056000838 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 536056000839 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 536056000840 Walker A/P-loop; other site 536056000841 ATP binding site [chemical binding]; other site 536056000842 Q-loop/lid; other site 536056000843 ABC transporter signature motif; other site 536056000844 Walker B; other site 536056000845 D-loop; other site 536056000846 H-loop/switch region; other site 536056000847 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 536056000848 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 536056000849 Walker A/P-loop; other site 536056000850 ATP binding site [chemical binding]; other site 536056000851 Q-loop/lid; other site 536056000852 ABC transporter signature motif; other site 536056000853 Walker B; other site 536056000854 D-loop; other site 536056000855 H-loop/switch region; other site 536056000856 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 536056000857 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 536056000858 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 536056000859 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 536056000860 dimer interface [polypeptide binding]; other site 536056000861 conserved gate region; other site 536056000862 putative PBP binding loops; other site 536056000863 ABC-ATPase subunit interface; other site 536056000864 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 536056000865 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 536056000866 dimer interface [polypeptide binding]; other site 536056000867 conserved gate region; other site 536056000868 putative PBP binding loops; other site 536056000869 ABC-ATPase subunit interface; other site 536056000870 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 536056000871 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 536056000872 Walker A/P-loop; other site 536056000873 ATP binding site [chemical binding]; other site 536056000874 Q-loop/lid; other site 536056000875 ABC transporter signature motif; other site 536056000876 Walker B; other site 536056000877 D-loop; other site 536056000878 H-loop/switch region; other site 536056000879 TOBE domain; Region: TOBE_2; pfam08402 536056000880 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 536056000881 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 536056000882 putative active site [active] 536056000883 catalytic site [active] 536056000884 putative metal binding site [ion binding]; other site 536056000885 hypothetical protein; Provisional; Region: PRK10350 536056000886 gamma-glutamyltranspeptidase; Reviewed; Region: ggt; PRK09615 536056000887 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 536056000888 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 536056000889 putative acetyltransferase YhhY; Provisional; Region: PRK10140 536056000890 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536056000891 Coenzyme A binding pocket [chemical binding]; other site 536056000892 putative oxidoreductase; Provisional; Region: PRK10206 536056000893 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 536056000894 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 536056000895 Pirin-related protein [General function prediction only]; Region: COG1741 536056000896 Pirin; Region: Pirin; pfam02678 536056000897 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 536056000898 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536056000899 DNA binding site [nucleotide binding] 536056000900 domain linker motif; other site 536056000901 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 536056000902 putative ligand binding site [chemical binding]; other site 536056000903 putative dimerization interface [polypeptide binding]; other site 536056000904 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 536056000905 Shikimate kinase; Region: SKI; pfam01202 536056000906 low affinity gluconate transporter; Provisional; Region: PRK10472 536056000907 gluconate transporter; Region: gntP; TIGR00791 536056000908 putative antibiotic transporter; Provisional; Region: PRK10739 536056000909 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 536056000910 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 536056000911 glycogen branching enzyme; Provisional; Region: PRK05402 536056000912 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 536056000913 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 536056000914 active site 536056000915 catalytic site [active] 536056000916 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 536056000917 glycogen debranching enzyme; Provisional; Region: PRK03705 536056000918 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 536056000919 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 536056000920 active site 536056000921 catalytic site [active] 536056000922 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 536056000923 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 536056000924 ligand binding site; other site 536056000925 oligomer interface; other site 536056000926 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 536056000927 sulfate 1 binding site; other site 536056000928 glycogen synthase; Provisional; Region: glgA; PRK00654 536056000929 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 536056000930 ADP-binding pocket [chemical binding]; other site 536056000931 homodimer interface [polypeptide binding]; other site 536056000932 glycogen phosphorylase; Provisional; Region: PRK14986 536056000933 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 536056000934 homodimer interface [polypeptide binding]; other site 536056000935 active site pocket [active] 536056000936 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 536056000937 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 536056000938 active site residue [active] 536056000939 intramembrane serine protease GlpG; Provisional; Region: PRK10907 536056000940 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 536056000941 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 536056000942 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 536056000943 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 536056000944 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 536056000945 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 536056000946 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 536056000947 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 536056000948 Walker A motif; other site 536056000949 ATP binding site [chemical binding]; other site 536056000950 Walker B motif; other site 536056000951 arginine finger; other site 536056000952 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 536056000953 hypothetical protein; Reviewed; Region: PRK09588 536056000954 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 536056000955 RNA 3' phosphate cyclase domain - RNA phosphate cyclases are enzymes that catalyze the ATP-dependent conversion of 3'-phosphate at the end of RNA into 2', 3'-cyclic phosphodiester bond. The enzymes are conserved in eucaryotes; Region: RNA_Cyclase; cd00295 536056000956 putative active site [active] 536056000957 adenylation catalytic residue [active] 536056000958 transcriptional regulator MalT; Provisional; Region: PRK04841 536056000959 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 536056000960 DNA binding residues [nucleotide binding] 536056000961 dimerization interface [polypeptide binding]; other site 536056000962 maltodextrin phosphorylase; Provisional; Region: PRK14985 536056000963 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 536056000964 homodimer interface [polypeptide binding]; other site 536056000965 active site pocket [active] 536056000966 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 536056000967 4-alpha-glucanotransferase; Region: malQ; TIGR00217 536056000968 high-affinity gluconate transporter; Provisional; Region: PRK14984 536056000969 gluconate transporter; Region: gntP; TIGR00791 536056000970 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 536056000971 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 536056000972 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 536056000973 DNA utilization protein GntX; Provisional; Region: PRK11595 536056000974 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536056000975 active site 536056000976 carboxylesterase BioH; Provisional; Region: PRK10349 536056000977 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 536056000978 putative transposase; Provisional; Region: PRK09857 536056000979 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 536056000980 ferrous iron transport protein FeoC; Provisional; Region: PRK15431 536056000981 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 536056000982 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 536056000983 G1 box; other site 536056000984 GTP/Mg2+ binding site [chemical binding]; other site 536056000985 Switch I region; other site 536056000986 G2 box; other site 536056000987 G3 box; other site 536056000988 Switch II region; other site 536056000989 G4 box; other site 536056000990 G5 box; other site 536056000991 Nucleoside recognition; Region: Gate; pfam07670 536056000992 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 536056000993 Nucleoside recognition; Region: Gate; pfam07670 536056000994 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 536056000995 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 536056000996 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 536056000997 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 536056000998 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 536056000999 RNA binding site [nucleotide binding]; other site 536056001000 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 536056001001 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 536056001002 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 536056001003 osmolarity response regulator; Provisional; Region: ompR; PRK09468 536056001004 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 536056001005 active site 536056001006 phosphorylation site [posttranslational modification] 536056001007 intermolecular recognition site; other site 536056001008 dimerization interface [polypeptide binding]; other site 536056001009 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 536056001010 DNA binding site [nucleotide binding] 536056001011 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 536056001012 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 536056001013 dimerization interface [polypeptide binding]; other site 536056001014 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 536056001015 dimer interface [polypeptide binding]; other site 536056001016 phosphorylation site [posttranslational modification] 536056001017 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 536056001018 ATP binding site [chemical binding]; other site 536056001019 G-X-G motif; other site 536056001020 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 536056001021 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 536056001022 active site 536056001023 substrate-binding site [chemical binding]; other site 536056001024 metal-binding site [ion binding] 536056001025 ATP binding site [chemical binding]; other site 536056001026 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 536056001027 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 536056001028 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 536056001029 dimerization interface [polypeptide binding]; other site 536056001030 domain crossover interface; other site 536056001031 redox-dependent activation switch; other site 536056001032 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 536056001033 RNA binding surface [nucleotide binding]; other site 536056001034 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 536056001035 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 536056001036 motif II; other site 536056001037 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 536056001038 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 536056001039 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 536056001040 ADP-ribose binding site [chemical binding]; other site 536056001041 dimer interface [polypeptide binding]; other site 536056001042 active site 536056001043 nudix motif; other site 536056001044 metal binding site [ion binding]; metal-binding site 536056001045 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 536056001046 Transglycosylase; Region: Transgly; pfam00912 536056001047 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 536056001048 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 536056001049 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 536056001050 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 536056001051 Protein of unknown function (DUF2531); Region: DUF2531; pfam10748 536056001052 outer membrane porin HofQ; Provisional; Region: hofQ; PRK10560 536056001053 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 536056001054 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 536056001055 shikimate kinase; Reviewed; Region: aroK; PRK00131 536056001056 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 536056001057 ADP binding site [chemical binding]; other site 536056001058 magnesium binding site [ion binding]; other site 536056001059 putative shikimate binding site; other site 536056001060 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 536056001061 active site 536056001062 dimer interface [polypeptide binding]; other site 536056001063 metal binding site [ion binding]; metal-binding site 536056001064 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 536056001065 cell division protein DamX; Validated; Region: PRK10905 536056001066 DNA adenine methylase; Provisional; Region: PRK10904 536056001067 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 536056001068 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 536056001069 substrate binding site [chemical binding]; other site 536056001070 hexamer interface [polypeptide binding]; other site 536056001071 metal binding site [ion binding]; metal-binding site 536056001072 phosphoglycolate phosphatase; Provisional; Region: PRK13222 536056001073 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 536056001074 motif II; other site 536056001075 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 536056001076 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 536056001077 active site 536056001078 HIGH motif; other site 536056001079 dimer interface [polypeptide binding]; other site 536056001080 KMSKS motif; other site 536056001081 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 536056001082 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX; Region: PLPDE_III_yhfX_like; cd06811 536056001083 dimer interface [polypeptide binding]; other site 536056001084 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 536056001085 active site 536056001086 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 536056001087 substrate binding site [chemical binding]; other site 536056001088 catalytic residue [active] 536056001089 putative mutase; Provisional; Region: PRK12383 536056001090 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; COG1015 536056001091 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 536056001092 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 536056001093 active site 536056001094 substrate binding pocket [chemical binding]; other site 536056001095 homodimer interaction site [polypeptide binding]; other site 536056001096 Protein of unknown function DUF2620; Region: DUF2620; pfam10941 536056001097 Protein of unknown function; Region: YhfT; pfam10797 536056001098 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 536056001099 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 536056001100 DNA-binding transcriptional regulator FrlR; Provisional; Region: PRK11402 536056001101 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056001102 DNA-binding site [nucleotide binding]; DNA binding site 536056001103 UTRA domain; Region: UTRA; pfam07702 536056001104 Fructoselysine kinase-like. Fructoselysine is a fructoseamine formed by glycation, a non-enzymatic reaction of glucose with a primary amine followed by an Amadori rearrangement, resulting in a protein that is modified at the amino terminus and at the...; Region: Fructoselysine_kinase_like; cd01940 536056001105 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 536056001106 substrate binding site [chemical binding]; other site 536056001107 ATP binding site [chemical binding]; other site 536056001108 fructoselysine 3-epimerase; Provisional; Region: PRK09856 536056001109 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 536056001110 AP (apurinic/apyrimidinic) site pocket; other site 536056001111 DNA interaction; other site 536056001112 Metal-binding active site; metal-binding site 536056001113 fructoselysine-6-P-deglycase; Provisional; Region: frlB; PRK11382 536056001114 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 536056001115 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 536056001116 dimer interface [polypeptide binding]; other site 536056001117 active site 536056001118 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 536056001119 hypothetical protein; Provisional; Region: PHA02764 536056001120 Protein of unknown function (DUF4223); Region: DUF4223; pfam13978 536056001121 siroheme synthase; Provisional; Region: cysG; PRK10637 536056001122 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 536056001123 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 536056001124 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 536056001125 active site 536056001126 SAM binding site [chemical binding]; other site 536056001127 homodimer interface [polypeptide binding]; other site 536056001128 nitrite transporter NirC; Provisional; Region: PRK11562 536056001129 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 536056001130 nitrite reductase subunit NirD; Provisional; Region: PRK14989 536056001131 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536056001132 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 536056001133 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 536056001134 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 536056001135 putative transporter; Provisional; Region: PRK03699 536056001136 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 536056001137 putative substrate translocation pore; other site 536056001138 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 536056001139 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 536056001140 substrate binding site [chemical binding]; other site 536056001141 hypothetical protein; Provisional; Region: PRK10204 536056001142 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 536056001143 cell filamentation protein Fic; Provisional; Region: PRK10347 536056001144 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 536056001145 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 536056001146 glutamine binding [chemical binding]; other site 536056001147 catalytic triad [active] 536056001148 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 536056001149 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 536056001150 inhibitor-cofactor binding pocket; inhibition site 536056001151 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056001152 catalytic residue [active] 536056001153 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 536056001154 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 536056001155 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 536056001156 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 536056001157 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 536056001158 ligand binding site [chemical binding]; other site 536056001159 flexible hinge region; other site 536056001160 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 536056001161 putative switch regulator; other site 536056001162 non-specific DNA interactions [nucleotide binding]; other site 536056001163 DNA binding site [nucleotide binding] 536056001164 sequence specific DNA binding site [nucleotide binding]; other site 536056001165 putative cAMP binding site [chemical binding]; other site 536056001166 hypothetical protein; Provisional; Region: PRK10738 536056001167 Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to...; Region: PRK_like; cd02029 536056001168 active site 536056001169 hypothetical protein; Provisional; Region: PRK04966 536056001170 putative hydrolase; Provisional; Region: PRK10985 536056001171 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 536056001172 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056001173 Walker A/P-loop; other site 536056001174 ATP binding site [chemical binding]; other site 536056001175 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536056001176 ABC transporter signature motif; other site 536056001177 Walker B; other site 536056001178 D-loop; other site 536056001179 ABC transporter; Region: ABC_tran_2; pfam12848 536056001180 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536056001181 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 536056001182 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 536056001183 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 536056001184 TrkA-N domain; Region: TrkA_N; pfam02254 536056001185 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]; Region: COG3529 536056001186 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 536056001187 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 536056001188 phi X174 lysis protein; Provisional; Region: PRK02793 536056001189 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 536056001190 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 536056001191 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 536056001192 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 536056001193 YheO-like PAS domain; Region: PAS_6; pfam08348 536056001194 HTH domain; Region: HTH_22; pfam13309 536056001195 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 536056001196 sulfur relay protein TusC; Validated; Region: PRK00211 536056001197 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 536056001198 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 536056001199 S17 interaction site [polypeptide binding]; other site 536056001200 S8 interaction site; other site 536056001201 16S rRNA interaction site [nucleotide binding]; other site 536056001202 streptomycin interaction site [chemical binding]; other site 536056001203 23S rRNA interaction site [nucleotide binding]; other site 536056001204 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 536056001205 30S ribosomal protein S7; Validated; Region: PRK05302 536056001206 elongation factor G; Reviewed; Region: PRK00007 536056001207 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 536056001208 G1 box; other site 536056001209 putative GEF interaction site [polypeptide binding]; other site 536056001210 GTP/Mg2+ binding site [chemical binding]; other site 536056001211 Switch I region; other site 536056001212 G2 box; other site 536056001213 G3 box; other site 536056001214 Switch II region; other site 536056001215 G4 box; other site 536056001216 G5 box; other site 536056001217 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 536056001218 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 536056001219 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 536056001220 elongation factor Tu; Reviewed; Region: PRK00049 536056001221 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 536056001222 G1 box; other site 536056001223 GEF interaction site [polypeptide binding]; other site 536056001224 GTP/Mg2+ binding site [chemical binding]; other site 536056001225 Switch I region; other site 536056001226 G2 box; other site 536056001227 G3 box; other site 536056001228 Switch II region; other site 536056001229 G4 box; other site 536056001230 G5 box; other site 536056001231 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 536056001232 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 536056001233 Antibiotic Binding Site [chemical binding]; other site 536056001234 Chitin/cellulose binding domains of chitinase and related enzymes; Region: ChtBD3; cl00046 536056001235 Chitin/cellulose binding domains of chitinase and related enzymes; Region: ChtBD3; cl00046 536056001236 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 536056001237 aromatic chitin/cellulose binding site residues [chemical binding]; other site 536056001238 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 536056001239 active site 536056001240 bacterioferritin-associated ferredoxin; Provisional; Region: PRK10509 536056001241 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 536056001242 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 536056001243 heme binding site [chemical binding]; other site 536056001244 ferroxidase pore; other site 536056001245 ferroxidase diiron center [ion binding]; other site 536056001246 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 536056001247 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 536056001248 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 536056001249 Type II secretory pathway, component PulL [Intracellular trafficking and secretion]; Region: PulL; COG3297 536056001250 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 536056001251 GspL periplasmic domain; Region: GspL_C; pfam12693 536056001252 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 536056001253 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 536056001254 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 536056001255 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 536056001256 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 536056001257 type II secretion system protein I; Region: gspI; TIGR01707 536056001258 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 536056001259 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 536056001260 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 536056001261 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 536056001262 type II secretion system protein F; Region: GspF; TIGR02120 536056001263 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 536056001264 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 536056001265 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 536056001266 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 536056001267 Walker A motif; other site 536056001268 ATP binding site [chemical binding]; other site 536056001269 Walker B motif; other site 536056001270 type II secretion system protein D; Region: type_II_gspD; TIGR02517 536056001271 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 536056001272 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 536056001273 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 536056001274 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 536056001275 Type II secretory pathway, component PulC [Intracellular trafficking and secretion]; Region: PulC; COG3031 536056001276 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 536056001277 AAA domain; Region: AAA_22; pfam13401 536056001278 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 536056001279 protein secretion protein GspB; Provisional; Region: PRK09697 536056001280 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 536056001281 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 536056001282 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 536056001283 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 536056001284 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 536056001285 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 536056001286 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 536056001287 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 536056001288 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 536056001289 protein-rRNA interface [nucleotide binding]; other site 536056001290 putative translocon binding site; other site 536056001291 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 536056001292 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 536056001293 G-X-X-G motif; other site 536056001294 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 536056001295 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 536056001296 23S rRNA interface [nucleotide binding]; other site 536056001297 5S rRNA interface [nucleotide binding]; other site 536056001298 putative antibiotic binding site [chemical binding]; other site 536056001299 L25 interface [polypeptide binding]; other site 536056001300 L27 interface [polypeptide binding]; other site 536056001301 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 536056001302 23S rRNA interface [nucleotide binding]; other site 536056001303 putative translocon interaction site; other site 536056001304 signal recognition particle (SRP54) interaction site; other site 536056001305 L23 interface [polypeptide binding]; other site 536056001306 trigger factor interaction site; other site 536056001307 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 536056001308 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 536056001309 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 536056001310 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 536056001311 RNA binding site [nucleotide binding]; other site 536056001312 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 536056001313 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 536056001314 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 536056001315 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 536056001316 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 536056001317 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 536056001318 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 536056001319 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 536056001320 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 536056001321 23S rRNA interface [nucleotide binding]; other site 536056001322 5S rRNA interface [nucleotide binding]; other site 536056001323 L27 interface [polypeptide binding]; other site 536056001324 L5 interface [polypeptide binding]; other site 536056001325 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 536056001326 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 536056001327 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 536056001328 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 536056001329 23S rRNA binding site [nucleotide binding]; other site 536056001330 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 536056001331 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 536056001332 SecY translocase; Region: SecY; pfam00344 536056001333 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 536056001334 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 536056001335 30S ribosomal protein S13; Region: bact_S13; TIGR03631 536056001336 30S ribosomal protein S11; Validated; Region: PRK05309 536056001337 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 536056001338 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 536056001339 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 536056001340 RNA binding surface [nucleotide binding]; other site 536056001341 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 536056001342 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 536056001343 alphaNTD homodimer interface [polypeptide binding]; other site 536056001344 alphaNTD - beta interaction site [polypeptide binding]; other site 536056001345 alphaNTD - beta' interaction site [polypeptide binding]; other site 536056001346 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 536056001347 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 536056001348 hypothetical protein; Provisional; Region: PRK10203 536056001349 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 536056001350 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 536056001351 DNA binding residues [nucleotide binding] 536056001352 dimer interface [polypeptide binding]; other site 536056001353 metal binding site [ion binding]; metal-binding site 536056001354 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 536056001355 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 536056001356 Large-conductance mechanosensitive channel, MscL; Region: MscL; pfam01741 536056001357 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 536056001358 TrkA-N domain; Region: TrkA_N; pfam02254 536056001359 TrkA-C domain; Region: TrkA_C; pfam02080 536056001360 TrkA-N domain; Region: TrkA_N; pfam02254 536056001361 TrkA-C domain; Region: TrkA_C; pfam02080 536056001362 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 536056001363 putative RNA binding site [nucleotide binding]; other site 536056001364 16S rRNA methyltransferase B; Provisional; Region: PRK10901 536056001365 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 536056001366 S-adenosylmethionine binding site [chemical binding]; other site 536056001367 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 536056001368 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 536056001369 putative active site [active] 536056001370 substrate binding site [chemical binding]; other site 536056001371 putative cosubstrate binding site; other site 536056001372 catalytic site [active] 536056001373 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 536056001374 substrate binding site [chemical binding]; other site 536056001375 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 536056001376 active site 536056001377 catalytic residues [active] 536056001378 metal binding site [ion binding]; metal-binding site 536056001379 hypothetical protein; Provisional; Region: PRK10736 536056001380 DNA protecting protein DprA; Region: dprA; TIGR00732 536056001381 hypothetical protein; Validated; Region: PRK03430 536056001382 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 536056001383 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 536056001384 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 536056001385 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 536056001386 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional; Region: PRK10634 536056001387 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 536056001388 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 536056001389 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 536056001390 shikimate binding site; other site 536056001391 NAD(P) binding site [chemical binding]; other site 536056001392 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 536056001393 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 536056001394 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 536056001395 trimer interface [polypeptide binding]; other site 536056001396 putative metal binding site [ion binding]; other site 536056001397 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 536056001398 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 536056001399 Walker A/P-loop; other site 536056001400 ATP binding site [chemical binding]; other site 536056001401 Q-loop/lid; other site 536056001402 ABC transporter signature motif; other site 536056001403 Walker B; other site 536056001404 D-loop; other site 536056001405 H-loop/switch region; other site 536056001406 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536056001407 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 536056001408 dimer interface [polypeptide binding]; other site 536056001409 conserved gate region; other site 536056001410 putative PBP binding loops; other site 536056001411 ABC-ATPase subunit interface; other site 536056001412 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 536056001413 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 536056001414 conserved gate region; other site 536056001415 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 536056001416 dimer interface [polypeptide binding]; other site 536056001417 conserved gate region; other site 536056001418 putative PBP binding loops; other site 536056001419 ABC-ATPase subunit interface; other site 536056001420 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 536056001421 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 536056001422 Protein export membrane protein; Region: SecD_SecF; cl14618 536056001423 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 536056001424 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536056001425 HlyD family secretion protein; Region: HlyD_3; pfam13437 536056001426 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 536056001427 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536056001428 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 536056001429 Protein of unknown function (DUF2556); Region: DUF2556; pfam10831 536056001430 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 536056001431 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 536056001432 DNA methylase; Region: N6_N4_Mtase; pfam01555 536056001433 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 536056001434 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 536056001435 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 536056001436 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 536056001437 FMN binding site [chemical binding]; other site 536056001438 active site 536056001439 catalytic residues [active] 536056001440 substrate binding site [chemical binding]; other site 536056001441 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 536056001442 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 536056001443 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 536056001444 Na binding site [ion binding]; other site 536056001445 hypothetical protein; Provisional; Region: PRK10633 536056001446 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 536056001447 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 536056001448 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 536056001449 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 536056001450 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 536056001451 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 536056001452 carboxyltransferase (CT) interaction site; other site 536056001453 biotinylation site [posttranslational modification]; other site 536056001454 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 536056001455 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 536056001456 NADP binding site [chemical binding]; other site 536056001457 dimer interface [polypeptide binding]; other site 536056001458 regulatory protein CsrD; Provisional; Region: PRK11059 536056001459 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536056001460 metal binding site [ion binding]; metal-binding site 536056001461 active site 536056001462 I-site; other site 536056001463 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 536056001464 rod shape-determining protein MreB; Provisional; Region: PRK13927 536056001465 MreB and similar proteins; Region: MreB_like; cd10225 536056001466 nucleotide binding site [chemical binding]; other site 536056001467 Mg binding site [ion binding]; other site 536056001468 putative protofilament interaction site [polypeptide binding]; other site 536056001469 RodZ interaction site [polypeptide binding]; other site 536056001470 rod shape-determining protein MreC; Region: mreC; TIGR00219 536056001471 rod shape-determining protein MreC; Region: MreC; pfam04085 536056001472 rod shape-determining protein MreD; Provisional; Region: PRK11060 536056001473 Maf-like protein; Region: Maf; pfam02545 536056001474 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 536056001475 active site 536056001476 dimer interface [polypeptide binding]; other site 536056001477 ribonuclease G; Provisional; Region: PRK11712 536056001478 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 536056001479 homodimer interface [polypeptide binding]; other site 536056001480 oligonucleotide binding site [chemical binding]; other site 536056001481 hypothetical protein; Provisional; Region: PRK10899 536056001482 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 536056001483 protease TldD; Provisional; Region: tldD; PRK10735 536056001484 transcriptional regulator; Provisional; Region: PRK10632 536056001485 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056001486 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 536056001487 putative effector binding pocket; other site 536056001488 dimerization interface [polypeptide binding]; other site 536056001489 efflux system membrane protein; Provisional; Region: PRK11594 536056001490 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 536056001491 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536056001492 HlyD family secretion protein; Region: HlyD_3; pfam13437 536056001493 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 536056001494 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 536056001495 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell; Region: Barstar; cd05142 536056001496 RNAase interaction site [polypeptide binding]; other site 536056001497 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 536056001498 arginine repressor; Provisional; Region: PRK05066 536056001499 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 536056001500 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 536056001501 malate dehydrogenase; Provisional; Region: PRK05086 536056001502 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 536056001503 NAD binding site [chemical binding]; other site 536056001504 dimerization interface [polypeptide binding]; other site 536056001505 Substrate binding site [chemical binding]; other site 536056001506 serine endoprotease; Provisional; Region: PRK10898 536056001507 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 536056001508 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 536056001509 serine endoprotease; Provisional; Region: PRK10139 536056001510 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 536056001511 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 536056001512 protein binding site [polypeptide binding]; other site 536056001513 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 536056001514 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 536056001515 hypothetical protein; Provisional; Region: PRK11677 536056001516 Predicted ATPase [General function prediction only]; Region: COG1485 536056001517 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 536056001518 23S rRNA interface [nucleotide binding]; other site 536056001519 L3 interface [polypeptide binding]; other site 536056001520 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 536056001521 stringent starvation protein A; Provisional; Region: sspA; PRK09481 536056001522 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 536056001523 C-terminal domain interface [polypeptide binding]; other site 536056001524 putative GSH binding site (G-site) [chemical binding]; other site 536056001525 dimer interface [polypeptide binding]; other site 536056001526 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 536056001527 dimer interface [polypeptide binding]; other site 536056001528 N-terminal domain interface [polypeptide binding]; other site 536056001529 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 536056001530 putative cryptic C4-dicarboxylate transporter DcuD; Provisional; Region: PRK09804 536056001531 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 536056001532 transcriptional regulator NanR; Provisional; Region: PRK03837 536056001533 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056001534 DNA-binding site [nucleotide binding]; DNA binding site 536056001535 FCD domain; Region: FCD; pfam07729 536056001536 N-acetylneuraminate lyase; Region: nanA; TIGR00683 536056001537 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 536056001538 inhibitor site; inhibition site 536056001539 active site 536056001540 dimer interface [polypeptide binding]; other site 536056001541 catalytic residue [active] 536056001542 putative sialic acid transporter; Provisional; Region: PRK03893 536056001543 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 536056001544 putative substrate translocation pore; other site 536056001545 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 536056001546 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 536056001547 putative active site cavity [active] 536056001548 N-acetylmannosamine kinase; Provisional; Region: PRK05082 536056001549 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 536056001550 nucleotide binding site [chemical binding]; other site 536056001551 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 536056001552 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 536056001553 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 536056001554 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 536056001555 Protein of unknown function (DUF1120); Region: DUF1120; pfam06551 536056001556 Transposase domain (DUF772); Region: DUF772; pfam05598 536056001557 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 536056001558 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 536056001559 putative fimbrial outer membrane usher protein; Provisional; Region: PRK15304 536056001560 PapC N-terminal domain; Region: PapC_N; pfam13954 536056001561 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 536056001562 PapC C-terminal domain; Region: PapC_C; pfam13953 536056001563 putative fimbrial chaperone protein; Provisional; Region: PRK09918 536056001564 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 536056001565 Protein of unknown function (DUF1120); Region: DUF1120; pfam06551 536056001566 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 536056001567 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 536056001568 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536056001569 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 536056001570 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 536056001571 active site 536056001572 dimer interface [polypeptide binding]; other site 536056001573 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 536056001574 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 536056001575 active site 536056001576 FMN binding site [chemical binding]; other site 536056001577 substrate binding site [chemical binding]; other site 536056001578 3Fe-4S cluster binding site [ion binding]; other site 536056001579 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 536056001580 domain interface; other site 536056001581 radical SAM protein, TIGR01212 family; Region: TIGR01212 536056001582 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 536056001583 FeS/SAM binding site; other site 536056001584 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 536056001585 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 536056001586 putative active site [active] 536056001587 heme pocket [chemical binding]; other site 536056001588 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 536056001589 dimer interface [polypeptide binding]; other site 536056001590 phosphorylation site [posttranslational modification] 536056001591 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 536056001592 ATP binding site [chemical binding]; other site 536056001593 Mg2+ binding site [ion binding]; other site 536056001594 G-X-G motif; other site 536056001595 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 536056001596 active site 536056001597 phosphorylation site [posttranslational modification] 536056001598 intermolecular recognition site; other site 536056001599 dimerization interface [polypeptide binding]; other site 536056001600 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 536056001601 putative binding surface; other site 536056001602 active site 536056001603 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 536056001604 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 536056001605 conserved cys residue [active] 536056001606 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 536056001607 Transglycosylase; Region: Transgly; cl17702 536056001608 hypothetical protein; Provisional; Region: PRK10345 536056001609 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 536056001610 dimerization domain swap beta strand [polypeptide binding]; other site 536056001611 regulatory protein interface [polypeptide binding]; other site 536056001612 active site 536056001613 regulatory phosphorylation site [posttranslational modification]; other site 536056001614 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 536056001615 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 536056001616 active site 536056001617 phosphorylation site [posttranslational modification] 536056001618 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 536056001619 30S subunit binding site; other site 536056001620 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 536056001621 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 536056001622 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 536056001623 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 536056001624 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 536056001625 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 536056001626 Walker A/P-loop; other site 536056001627 ATP binding site [chemical binding]; other site 536056001628 Q-loop/lid; other site 536056001629 ABC transporter signature motif; other site 536056001630 Walker B; other site 536056001631 D-loop; other site 536056001632 H-loop/switch region; other site 536056001633 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 536056001634 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 536056001635 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 536056001636 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 536056001637 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 536056001638 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 536056001639 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 536056001640 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 536056001641 putative active site [active] 536056001642 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 536056001643 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 536056001644 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 536056001645 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 536056001646 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 536056001647 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 536056001648 Walker A/P-loop; other site 536056001649 ATP binding site [chemical binding]; other site 536056001650 Q-loop/lid; other site 536056001651 ABC transporter signature motif; other site 536056001652 Walker B; other site 536056001653 D-loop; other site 536056001654 H-loop/switch region; other site 536056001655 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 536056001656 conserved hypothetical integral membrane protein; Region: TIGR00056 536056001657 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 536056001658 mce related protein; Region: MCE; pfam02470 536056001659 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 536056001660 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 536056001661 anti sigma factor interaction site; other site 536056001662 regulatory phosphorylation site [posttranslational modification]; other site 536056001663 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 536056001664 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 536056001665 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 536056001666 hinge; other site 536056001667 active site 536056001668 DNA-binding transcriptional regulator Nlp; Provisional; Region: PRK10344 536056001669 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 536056001670 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 536056001671 substrate binding pocket [chemical binding]; other site 536056001672 chain length determination region; other site 536056001673 substrate-Mg2+ binding site; other site 536056001674 catalytic residues [active] 536056001675 aspartate-rich region 1; other site 536056001676 active site lid residues [active] 536056001677 aspartate-rich region 2; other site 536056001678 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 536056001679 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 536056001680 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 536056001681 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 536056001682 EamA-like transporter family; Region: EamA; pfam00892 536056001683 EamA-like transporter family; Region: EamA; pfam00892 536056001684 GTPase CgtA; Reviewed; Region: obgE; PRK12298 536056001685 GTP1/OBG; Region: GTP1_OBG; pfam01018 536056001686 Obg GTPase; Region: Obg; cd01898 536056001687 G1 box; other site 536056001688 GTP/Mg2+ binding site [chemical binding]; other site 536056001689 Switch I region; other site 536056001690 G2 box; other site 536056001691 G3 box; other site 536056001692 Switch II region; other site 536056001693 G4 box; other site 536056001694 G5 box; other site 536056001695 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 536056001696 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 536056001697 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 536056001698 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 536056001699 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 536056001700 RNA-binding protein YhbY; Provisional; Region: PRK10343 536056001701 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 536056001702 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 536056001703 S-adenosylmethionine binding site [chemical binding]; other site 536056001704 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 536056001705 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 536056001706 Walker A motif; other site 536056001707 ATP binding site [chemical binding]; other site 536056001708 Walker B motif; other site 536056001709 arginine finger; other site 536056001710 Peptidase family M41; Region: Peptidase_M41; pfam01434 536056001711 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 536056001712 dihydropteroate synthase; Region: DHPS; TIGR01496 536056001713 substrate binding pocket [chemical binding]; other site 536056001714 dimer interface [polypeptide binding]; other site 536056001715 inhibitor binding site; inhibition site 536056001716 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 536056001717 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 536056001718 active site 536056001719 substrate binding site [chemical binding]; other site 536056001720 metal binding site [ion binding]; metal-binding site 536056001721 Preprotein translocase SecG subunit; Region: SecG; pfam03840 536056001722 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 536056001723 Sulfatase; Region: Sulfatase; pfam00884 536056001724 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 536056001725 ANP binding site [chemical binding]; other site 536056001726 Substrate Binding Site II [chemical binding]; other site 536056001727 Substrate Binding Site I [chemical binding]; other site 536056001728 ribosome maturation protein RimP; Reviewed; Region: PRK00092 536056001729 hypothetical protein; Provisional; Region: PRK14641 536056001730 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 536056001731 putative oligomer interface [polypeptide binding]; other site 536056001732 putative RNA binding site [nucleotide binding]; other site 536056001733 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 536056001734 NusA N-terminal domain; Region: NusA_N; pfam08529 536056001735 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 536056001736 RNA binding site [nucleotide binding]; other site 536056001737 homodimer interface [polypeptide binding]; other site 536056001738 NusA-like KH domain; Region: KH_5; pfam13184 536056001739 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 536056001740 G-X-X-G motif; other site 536056001741 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 536056001742 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 536056001743 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 536056001744 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 536056001745 translation initiation factor IF-2; Region: IF-2; TIGR00487 536056001746 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 536056001747 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 536056001748 G1 box; other site 536056001749 putative GEF interaction site [polypeptide binding]; other site 536056001750 GTP/Mg2+ binding site [chemical binding]; other site 536056001751 Switch I region; other site 536056001752 G2 box; other site 536056001753 G3 box; other site 536056001754 Switch II region; other site 536056001755 G4 box; other site 536056001756 G5 box; other site 536056001757 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 536056001758 Translation-initiation factor 2; Region: IF-2; pfam11987 536056001759 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 536056001760 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 536056001761 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 536056001762 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 536056001763 RNA binding site [nucleotide binding]; other site 536056001764 active site 536056001765 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 536056001766 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 536056001767 16S/18S rRNA binding site [nucleotide binding]; other site 536056001768 S13e-L30e interaction site [polypeptide binding]; other site 536056001769 25S rRNA binding site [nucleotide binding]; other site 536056001770 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 536056001771 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 536056001772 RNase E interface [polypeptide binding]; other site 536056001773 trimer interface [polypeptide binding]; other site 536056001774 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 536056001775 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 536056001776 RNase E interface [polypeptide binding]; other site 536056001777 trimer interface [polypeptide binding]; other site 536056001778 active site 536056001779 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 536056001780 putative nucleic acid binding region [nucleotide binding]; other site 536056001781 G-X-X-G motif; other site 536056001782 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 536056001783 RNA binding site [nucleotide binding]; other site 536056001784 domain interface; other site 536056001785 lipoprotein NlpI; Provisional; Region: PRK11189 536056001786 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 536056001787 binding surface 536056001788 TPR motif; other site 536056001789 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 536056001790 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 536056001791 ATP binding site [chemical binding]; other site 536056001792 Mg++ binding site [ion binding]; other site 536056001793 motif III; other site 536056001794 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 536056001795 nucleotide binding region [chemical binding]; other site 536056001796 ATP-binding site [chemical binding]; other site 536056001797 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 536056001798 putative RNA binding site [nucleotide binding]; other site 536056001799 tryptophan permease; Provisional; Region: PRK10483 536056001800 aromatic amino acid transport protein; Region: araaP; TIGR00837 536056001801 hypothetical protein; Provisional; Region: PRK10508 536056001802 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 536056001803 putative protease; Provisional; Region: PRK15447 536056001804 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 536056001805 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 536056001806 Peptidase family U32; Region: Peptidase_U32; pfam01136 536056001807 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 536056001808 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 536056001809 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536056001810 Coenzyme A binding pocket [chemical binding]; other site 536056001811 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 536056001812 GIY-YIG motif/motif A; other site 536056001813 putative active site [active] 536056001814 putative metal binding site [ion binding]; other site 536056001815 hypothetical protein; Provisional; Region: PRK03467 536056001816 intracellular protease, PfpI family; Region: PfpI; TIGR01382 536056001817 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 536056001818 proposed catalytic triad [active] 536056001819 conserved cys residue [active] 536056001820 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 536056001821 NADH(P)-binding; Region: NAD_binding_10; pfam13460 536056001822 NAD binding site [chemical binding]; other site 536056001823 active site 536056001824 Predicted permease; Region: DUF318; pfam03773 536056001825 outer membrane lipoprotein; Provisional; Region: PRK11023 536056001826 BON domain; Region: BON; pfam04972 536056001827 BON domain; Region: BON; pfam04972 536056001828 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 536056001829 dimer interface [polypeptide binding]; other site 536056001830 active site 536056001831 TIGR00252 family protein; Region: TIGR00252 536056001832 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 536056001833 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 536056001834 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 536056001835 putative ligand binding site [chemical binding]; other site 536056001836 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 536056001837 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 536056001838 putative SAM binding site [chemical binding]; other site 536056001839 putative homodimer interface [polypeptide binding]; other site 536056001840 Fimbrial protein; Region: Fimbrial; pfam00419 536056001841 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 536056001842 PapC N-terminal domain; Region: PapC_N; pfam13954 536056001843 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 536056001844 PapC C-terminal domain; Region: PapC_C; pfam13953 536056001845 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 536056001846 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 536056001847 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 536056001848 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 536056001849 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 536056001850 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 536056001851 active site 536056001852 trimer interface [polypeptide binding]; other site 536056001853 allosteric site; other site 536056001854 active site lid [active] 536056001855 PTS system N-acetylgalactosamine-specific transporter subunit IID; Provisional; Region: PRK09855 536056001856 PTS system N-acetylgalactosamine-specific transporter subunit IIC; Provisional; Region: PRK09757 536056001857 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 536056001858 active site 536056001859 phosphorylation site [posttranslational modification] 536056001860 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cd00453 536056001861 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 536056001862 active site 536056001863 intersubunit interface [polypeptide binding]; other site 536056001864 zinc binding site [ion binding]; other site 536056001865 Na+ binding site [ion binding]; other site 536056001866 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 536056001867 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 536056001868 dimer interface [polypeptide binding]; other site 536056001869 active site 536056001870 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 536056001871 putative active site [active] 536056001872 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 536056001873 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 536056001874 active site 536056001875 phosphorylation site [posttranslational modification] 536056001876 tagatose 6-phosphate aldolase subunit KbaZ; Provisional; Region: PRK15458 536056001877 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 536056001878 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 536056001879 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 536056001880 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 536056001881 putative regulator PrlF; Provisional; Region: PRK09974 536056001882 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 536056001883 galactarate dehydratase; Region: galactar-dH20; TIGR03248 536056001884 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 536056001885 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 536056001886 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 536056001887 D-galactonate transporter; Region: 2A0114; TIGR00893 536056001888 putative substrate translocation pore; other site 536056001889 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 536056001890 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 536056001891 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 536056001892 glycerate kinase I; Provisional; Region: PRK10342 536056001893 hypothetical protein; Provisional; Region: PRK09716 536056001894 DNA-binding transcriptional activator TdcR; Provisional; Region: PRK11424 536056001895 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 536056001896 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056001897 The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold; Region: PBP2_TdcA; cd08418 536056001898 putative substrate binding pocket [chemical binding]; other site 536056001899 putative dimerization interface [polypeptide binding]; other site 536056001900 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 536056001901 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 536056001902 tetramer interface [polypeptide binding]; other site 536056001903 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056001904 catalytic residue [active] 536056001905 threonine/serine transporter TdcC; Provisional; Region: PRK13629 536056001906 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 536056001907 propionate/acetate kinase; Provisional; Region: PRK12379 536056001908 Acetokinase family; Region: Acetate_kinase; cl17229 536056001909 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 536056001910 Pyruvate formate lyase 1; Region: PFL1; cd01678 536056001911 coenzyme A binding site [chemical binding]; other site 536056001912 active site 536056001913 catalytic residues [active] 536056001914 glycine loop; other site 536056001915 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 536056001916 homotrimer interaction site [polypeptide binding]; other site 536056001917 putative active site [active] 536056001918 L-serine dehydratase TdcG; Provisional; Region: PRK15040 536056001919 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 536056001920 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 536056001921 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 536056001922 serine transporter; Region: stp; TIGR00814 536056001923 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 536056001924 Pirin-related protein [General function prediction only]; Region: COG1741 536056001925 Pirin; Region: Pirin; pfam02678 536056001926 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056001927 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 536056001928 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 536056001929 dimerization interface [polypeptide binding]; other site 536056001930 Predicted membrane protein [Function unknown]; Region: COG3152 536056001931 Predicted membrane protein [Function unknown]; Region: COG3152 536056001932 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 536056001933 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 536056001934 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 536056001935 putative dimer interface [polypeptide binding]; other site 536056001936 N-terminal domain interface [polypeptide binding]; other site 536056001937 putative substrate binding pocket (H-site) [chemical binding]; other site 536056001938 Predicted membrane protein [Function unknown]; Region: COG2259 536056001939 YqjK-like protein; Region: YqjK; pfam13997 536056001940 Predicted membrane protein [Function unknown]; Region: COG5393 536056001941 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 536056001942 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 536056001943 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 536056001944 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 536056001945 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 536056001946 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 536056001947 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056001948 DNA-binding site [nucleotide binding]; DNA binding site 536056001949 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 536056001950 D-galactonate transporter; Region: 2A0114; TIGR00893 536056001951 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 536056001952 putative substrate translocation pore; other site 536056001953 Glucuronate isomerase; Region: UxaC; pfam02614 536056001954 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 536056001955 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 536056001956 galactarate dehydratase; Region: galactar-dH20; TIGR03248 536056001957 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 536056001958 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 536056001959 serine/threonine transporter SstT; Provisional; Region: PRK13628 536056001960 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 536056001961 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 536056001962 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 536056001963 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 536056001964 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 536056001965 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 536056001966 putative active site [active] 536056001967 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 536056001968 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 536056001969 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 536056001970 S-adenosylmethionine binding site [chemical binding]; other site 536056001971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4680 536056001972 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 536056001973 non-specific DNA binding site [nucleotide binding]; other site 536056001974 salt bridge; other site 536056001975 sequence-specific DNA binding site [nucleotide binding]; other site 536056001976 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 536056001977 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 536056001978 active site 536056001979 FMN binding site [chemical binding]; other site 536056001980 2,4-decadienoyl-CoA binding site; other site 536056001981 catalytic residue [active] 536056001982 4Fe-4S cluster binding site [ion binding]; other site 536056001983 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 536056001984 alpha-glucosidase; Provisional; Region: PRK10137 536056001985 Protein of unknown function, DUF608; Region: DUF608; pfam04685 536056001986 Trehalase; Region: Trehalase; cl17346 536056001987 inner membrane transporter YjeM; Provisional; Region: PRK15238 536056001988 cryptic beta-D-galactosidase subunit beta; Reviewed; Region: ebgC; PRK10202 536056001989 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 536056001990 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 536056001991 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 536056001992 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 536056001993 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 536056001994 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 536056001995 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536056001996 DNA binding site [nucleotide binding] 536056001997 domain linker motif; other site 536056001998 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 536056001999 putative dimerization interface [polypeptide binding]; other site 536056002000 putative ligand binding site [chemical binding]; other site 536056002001 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 536056002002 dimer interface [polypeptide binding]; other site 536056002003 putative tRNA-binding site [nucleotide binding]; other site 536056002004 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 536056002005 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 536056002006 inhibitor-cofactor binding pocket; inhibition site 536056002007 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056002008 catalytic residue [active] 536056002009 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 536056002010 PAS fold; Region: PAS_3; pfam08447 536056002011 putative active site [active] 536056002012 heme pocket [chemical binding]; other site 536056002013 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 536056002014 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536056002015 dimer interface [polypeptide binding]; other site 536056002016 putative CheW interface [polypeptide binding]; other site 536056002017 Predicted transcriptional regulators [Transcription]; Region: COG1695 536056002018 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 536056002019 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 536056002020 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 536056002021 FAD binding pocket [chemical binding]; other site 536056002022 FAD binding motif [chemical binding]; other site 536056002023 phosphate binding motif [ion binding]; other site 536056002024 NAD binding pocket [chemical binding]; other site 536056002025 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 536056002026 active site 536056002027 SUMO-1 interface [polypeptide binding]; other site 536056002028 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 536056002029 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 536056002030 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 536056002031 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 536056002032 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536056002033 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 536056002034 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 536056002035 DNA binding residues [nucleotide binding] 536056002036 DNA primase; Validated; Region: dnaG; PRK05667 536056002037 CHC2 zinc finger; Region: zf-CHC2; pfam01807 536056002038 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 536056002039 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 536056002040 active site 536056002041 metal binding site [ion binding]; metal-binding site 536056002042 interdomain interaction site; other site 536056002043 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 536056002044 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 536056002045 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 536056002046 UGMP family protein; Validated; Region: PRK09604 536056002047 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 536056002048 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 536056002049 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 536056002050 transmembrane helices; other site 536056002051 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 536056002052 transcriptional activator TtdR; Provisional; Region: PRK09801 536056002053 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056002054 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 536056002055 putative effector binding pocket; other site 536056002056 putative dimerization interface [polypeptide binding]; other site 536056002057 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 536056002058 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 536056002059 homooctamer interface [polypeptide binding]; other site 536056002060 active site 536056002061 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 536056002062 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 536056002063 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 536056002064 active site 536056002065 NTP binding site [chemical binding]; other site 536056002066 metal binding triad [ion binding]; metal-binding site 536056002067 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 536056002068 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536056002069 Zn2+ binding site [ion binding]; other site 536056002070 Mg2+ binding site [ion binding]; other site 536056002071 SH3 domain-containing protein; Provisional; Region: PRK10884 536056002072 Bacterial SH3 domain homologues; Region: SH3b; smart00287 536056002073 Uncharacterized conserved protein [Function unknown]; Region: COG3025 536056002074 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 536056002075 putative active site [active] 536056002076 putative metal binding residues [ion binding]; other site 536056002077 signature motif; other site 536056002078 putative triphosphate binding site [ion binding]; other site 536056002079 CHAD domain; Region: CHAD; pfam05235 536056002080 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 536056002081 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 536056002082 metal binding triad; other site 536056002083 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 536056002084 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 536056002085 metal binding triad; other site 536056002086 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 536056002087 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 536056002088 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 536056002089 putative ribose interaction site [chemical binding]; other site 536056002090 putative ADP binding site [chemical binding]; other site 536056002091 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 536056002092 active site 536056002093 nucleotide binding site [chemical binding]; other site 536056002094 HIGH motif; other site 536056002095 KMSKS motif; other site 536056002096 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 536056002097 Band_7_flotillin: 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. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 536056002098 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 536056002099 glycogen synthesis protein GlgS; Provisional; Region: PRK02922 536056002100 Fimbrial protein; Region: Fimbrial; pfam00419 536056002101 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 536056002102 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 536056002103 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 536056002104 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 536056002105 PapC N-terminal domain; Region: PapC_N; pfam13954 536056002106 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 536056002107 PapC C-terminal domain; Region: PapC_C; pfam13953 536056002108 IS2 transposase TnpB; Reviewed; Region: PRK09409 536056002109 HTH-like domain; Region: HTH_21; pfam13276 536056002110 Integrase core domain; Region: rve; pfam00665 536056002111 Integrase core domain; Region: rve_3; pfam13683 536056002112 IS2 repressor TnpA; Reviewed; Region: PRK09413 536056002113 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 536056002114 putative fimbrial protein; Provisional; Region: PRK09733 536056002115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 536056002116 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 536056002117 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 536056002118 Protein of unknown function (DUF4051); Region: DUF4051; pfam13260 536056002119 zinc transporter ZupT; Provisional; Region: PRK04201 536056002120 ZIP Zinc transporter; Region: Zip; pfam02535 536056002121 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 536056002122 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 536056002123 putative active site [active] 536056002124 metal binding site [ion binding]; metal-binding site 536056002125 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 536056002126 hypothetical protein; Provisional; Region: PRK11653 536056002127 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 536056002128 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 536056002129 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 536056002130 dimer interface [polypeptide binding]; other site 536056002131 ADP-ribose binding site [chemical binding]; other site 536056002132 active site 536056002133 nudix motif; other site 536056002134 metal binding site [ion binding]; metal-binding site 536056002135 putative dehydrogenase; Provisional; Region: PRK11039 536056002136 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 536056002137 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 536056002138 active site 536056002139 metal binding site [ion binding]; metal-binding site 536056002140 hexamer interface [polypeptide binding]; other site 536056002141 esterase YqiA; Provisional; Region: PRK11071 536056002142 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 536056002143 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 536056002144 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 536056002145 ATP binding site [chemical binding]; other site 536056002146 Mg2+ binding site [ion binding]; other site 536056002147 G-X-G motif; other site 536056002148 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 536056002149 anchoring element; other site 536056002150 dimer interface [polypeptide binding]; other site 536056002151 ATP binding site [chemical binding]; other site 536056002152 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 536056002153 active site 536056002154 metal binding site [ion binding]; metal-binding site 536056002155 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 536056002156 Uncharacterized conserved protein [Function unknown]; Region: COG1359 536056002157 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 536056002158 sensor protein QseC; Provisional; Region: PRK10337 536056002159 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 536056002160 dimer interface [polypeptide binding]; other site 536056002161 phosphorylation site [posttranslational modification] 536056002162 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 536056002163 ATP binding site [chemical binding]; other site 536056002164 Mg2+ binding site [ion binding]; other site 536056002165 G-X-G motif; other site 536056002166 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 536056002167 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 536056002168 active site 536056002169 phosphorylation site [posttranslational modification] 536056002170 intermolecular recognition site; other site 536056002171 dimerization interface [polypeptide binding]; other site 536056002172 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 536056002173 DNA binding site [nucleotide binding] 536056002174 TIGR00156 family protein; Region: TIGR00156 536056002175 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 536056002176 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 536056002177 peptide binding site [polypeptide binding]; other site 536056002178 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 536056002179 toxin interface [polypeptide binding]; other site 536056002180 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 536056002181 Zn binding site [ion binding]; other site 536056002182 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 536056002183 non-specific DNA binding site [nucleotide binding]; other site 536056002184 salt bridge; other site 536056002185 sequence-specific DNA binding site [nucleotide binding]; other site 536056002186 putative ABC transporter periplasmic-binding protein; Provisional; Region: PRK09755 536056002187 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 536056002188 peptide binding site [polypeptide binding]; other site 536056002189 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 536056002190 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 536056002191 CAP-like domain; other site 536056002192 active site 536056002193 primary dimer interface [polypeptide binding]; other site 536056002194 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536056002195 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 536056002196 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 536056002197 putative acyl-acceptor binding pocket; other site 536056002198 hypothetical protein; Provisional; Region: PRK01254 536056002199 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 536056002200 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 536056002201 putative outer membrane lipoprotein; Provisional; Region: PRK09973 536056002202 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 536056002203 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 536056002204 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 536056002205 active site 536056002206 catalytic tetrad [active] 536056002207 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 536056002208 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 536056002209 dimer interface [polypeptide binding]; other site 536056002210 active site 536056002211 metal binding site [ion binding]; metal-binding site 536056002212 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 536056002213 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 536056002214 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056002215 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056002216 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 536056002217 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 536056002218 cystathionine beta-lyase; Provisional; Region: PRK08114 536056002219 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 536056002220 homodimer interface [polypeptide binding]; other site 536056002221 substrate-cofactor binding pocket; other site 536056002222 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056002223 catalytic residue [active] 536056002224 biopolymer transport protein ExbB; Provisional; Region: PRK10414 536056002225 biopolymer transport protein ExbD; Provisional; Region: PRK11267 536056002226 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 536056002227 oxidoreductase; Provisional; Region: PRK07985 536056002228 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 536056002229 NAD binding site [chemical binding]; other site 536056002230 metal binding site [ion binding]; metal-binding site 536056002231 active site 536056002232 hypothetical protein; Provisional; Region: PRK05208 536056002233 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 536056002234 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 536056002235 active site 536056002236 catalytic tetrad [active] 536056002237 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 536056002238 hydrogenase 2 small subunit; Provisional; Region: PRK10468 536056002239 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 536056002240 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 536056002241 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 536056002242 4Fe-4S binding domain; Region: Fer4_6; pfam12837 536056002243 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 536056002244 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 536056002245 hydrogenase 2 large subunit; Provisional; Region: PRK10467 536056002246 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 536056002247 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 536056002248 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 536056002249 putative substrate-binding site; other site 536056002250 nickel binding site [ion binding]; other site 536056002251 hydrogenase 2-specific chaperone; Provisional; Region: PRK10465 536056002252 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 536056002253 hydrogenase nickel incorporation protein HybF; Provisional; Region: PRK12380 536056002254 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 536056002255 putative S-transferase; Provisional; Region: PRK11752 536056002256 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 536056002257 C-terminal domain interface [polypeptide binding]; other site 536056002258 GSH binding site (G-site) [chemical binding]; other site 536056002259 dimer interface [polypeptide binding]; other site 536056002260 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 536056002261 dimer interface [polypeptide binding]; other site 536056002262 N-terminal domain interface [polypeptide binding]; other site 536056002263 active site 536056002264 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 536056002265 CHAP domain; Region: CHAP; pfam05257 536056002266 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 536056002267 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 536056002268 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 536056002269 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 536056002270 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 536056002271 TMP-binding site; other site 536056002272 ATP-binding site [chemical binding]; other site 536056002273 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 536056002274 TMP-binding site; other site 536056002275 ATP-binding site [chemical binding]; other site 536056002276 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 536056002277 Thymidylate kinase; Region: Thymidylate_kin; pfam02223 536056002278 active site 536056002279 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 536056002280 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 536056002281 Transposase domain (DUF772); Region: DUF772; pfam05598 536056002282 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 536056002283 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 536056002284 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 536056002285 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056002286 DNA-binding site [nucleotide binding]; DNA binding site 536056002287 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 536056002288 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 536056002289 FAD binding domain; Region: FAD_binding_4; pfam01565 536056002290 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 536056002291 FAD binding domain; Region: FAD_binding_4; pfam01565 536056002292 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 536056002293 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 536056002294 Cysteine-rich domain; Region: CCG; pfam02754 536056002295 Cysteine-rich domain; Region: CCG; pfam02754 536056002296 hypothetical protein; Provisional; Region: PRK09732 536056002297 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 536056002298 active site 536056002299 glycolate transporter; Provisional; Region: PRK09695 536056002300 L-lactate permease; Region: Lactate_perm; cl00701 536056002301 Domain of unknown function (DUF4092); Region: DUF4092; pfam13322 536056002302 Peptidase M60-like family; Region: M60-like; pfam13402 536056002303 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 536056002304 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 536056002305 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 536056002306 putative type II secretion protein GspC; Provisional; Region: PRK09681 536056002307 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 536056002308 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 536056002309 GspL-like protein; Provisional; Region: PRK09662 536056002310 putative general secretion pathway protein YghD; Provisional; Region: PRK09731 536056002311 Uncharacterized membrane protein, possible Na+ channel or pump [General function prediction only]; Region: COG1811 536056002312 ornithine decarboxylase; Provisional; Region: PRK13578 536056002313 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 536056002314 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 536056002315 homodimer interface [polypeptide binding]; other site 536056002316 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056002317 catalytic residue [active] 536056002318 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 536056002319 nucleoside transporter; Region: 2A0110; TIGR00889 536056002320 murein transglycosylase C; Provisional; Region: mltC; PRK11671 536056002321 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 536056002322 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 536056002323 N-acetyl-D-glucosamine binding site [chemical binding]; other site 536056002324 catalytic residue [active] 536056002325 oxidative damage protection protein; Provisional; Region: PRK05408 536056002326 adenine DNA glycosylase; Provisional; Region: PRK10880 536056002327 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 536056002328 minor groove reading motif; other site 536056002329 helix-hairpin-helix signature motif; other site 536056002330 substrate binding pocket [chemical binding]; other site 536056002331 active site 536056002332 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 536056002333 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 536056002334 DNA binding and oxoG recognition site [nucleotide binding] 536056002335 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 536056002336 hypothetical protein; Provisional; Region: PRK11702 536056002337 hypothetical protein; Provisional; Region: PRK10626 536056002338 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 536056002339 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 536056002340 homodimer interface [polypeptide binding]; other site 536056002341 active site 536056002342 Protein of unknown function (DUF1202); Region: DUF1202; pfam06717 536056002343 HemN family oxidoreductase; Provisional; Region: PRK05660 536056002344 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 536056002345 FeS/SAM binding site; other site 536056002346 HemN C-terminal domain; Region: HemN_C; pfam06969 536056002347 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 536056002348 active site 536056002349 dimerization interface [polypeptide binding]; other site 536056002350 hypothetical protein; Validated; Region: PRK05090 536056002351 YGGT family; Region: YGGT; pfam02325 536056002352 YGGT family; Region: YGGT; pfam02325 536056002353 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 536056002354 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 536056002355 catalytic residue [active] 536056002356 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 536056002357 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 536056002358 Walker A motif; other site 536056002359 ATP binding site [chemical binding]; other site 536056002360 Walker B motif; other site 536056002361 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 536056002362 hypothetical protein; Validated; Region: PRK00228 536056002363 glutathione synthetase; Provisional; Region: PRK05246 536056002364 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 536056002365 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 536056002366 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 536056002367 RNA methyltransferase, RsmE family; Region: TIGR00046 536056002368 DNA-specific endonuclease I; Provisional; Region: PRK15137 536056002369 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 536056002370 hypothetical protein; Provisional; Region: PRK04860 536056002371 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 536056002372 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 536056002373 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 536056002374 putative substrate translocation pore; other site 536056002375 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 536056002376 S-adenosylmethionine synthetase; Validated; Region: PRK05250 536056002377 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 536056002378 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 536056002379 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 536056002380 Protein of unknown function (DUF2684); Region: DUF2684; pfam10885 536056002381 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 536056002382 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 536056002383 dimer interface [polypeptide binding]; other site 536056002384 active site 536056002385 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 536056002386 catalytic residues [active] 536056002387 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 536056002388 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 536056002389 agmatinase; Region: agmatinase; TIGR01230 536056002390 oligomer interface [polypeptide binding]; other site 536056002391 putative active site [active] 536056002392 Mn binding site [ion binding]; other site 536056002393 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 536056002394 transketolase; Reviewed; Region: PRK12753 536056002395 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 536056002396 TPP-binding site [chemical binding]; other site 536056002397 dimer interface [polypeptide binding]; other site 536056002398 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 536056002399 PYR/PP interface [polypeptide binding]; other site 536056002400 dimer interface [polypeptide binding]; other site 536056002401 TPP binding site [chemical binding]; other site 536056002402 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 536056002403 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 536056002404 active site 536056002405 phosphorylation site [posttranslational modification] 536056002406 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 536056002407 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 536056002408 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 536056002409 active site 536056002410 P-loop; other site 536056002411 phosphorylation site [posttranslational modification] 536056002412 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 536056002413 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 536056002414 putative NAD(P) binding site [chemical binding]; other site 536056002415 catalytic Zn binding site [ion binding]; other site 536056002416 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 536056002417 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 536056002418 putative active site [active] 536056002419 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 536056002420 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10022 536056002421 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 536056002422 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 536056002423 active site 536056002424 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 536056002425 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 536056002426 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 536056002427 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 536056002428 Phosphoglycerate kinase; Region: PGK; pfam00162 536056002429 substrate binding site [chemical binding]; other site 536056002430 hinge regions; other site 536056002431 ADP binding site [chemical binding]; other site 536056002432 catalytic site [active] 536056002433 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 536056002434 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 536056002435 active site 536056002436 intersubunit interface [polypeptide binding]; other site 536056002437 zinc binding site [ion binding]; other site 536056002438 Na+ binding site [ion binding]; other site 536056002439 mechanosensitive channel MscS; Provisional; Region: PRK10334 536056002440 Mechanosensitive ion channel; Region: MS_channel; pfam00924 536056002441 arginine exporter protein; Provisional; Region: PRK09304 536056002442 Uncharacterized conserved protein [Function unknown]; Region: COG2968 536056002443 oxidative stress defense protein; Provisional; Region: PRK11087 536056002444 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056002445 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536056002446 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 536056002447 dimerization interface [polypeptide binding]; other site 536056002448 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 536056002449 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 536056002450 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 536056002451 methylmalonyl-CoA decarboxylase; Provisional; Region: PRK11423 536056002452 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 536056002453 substrate binding site [chemical binding]; other site 536056002454 oxyanion hole (OAH) forming residues; other site 536056002455 trimer interface [polypeptide binding]; other site 536056002456 membrane ATPase/protein kinase; Provisional; Region: PRK09435 536056002457 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 536056002458 Walker A; other site 536056002459 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 536056002460 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 536056002461 active site 536056002462 substrate binding site [chemical binding]; other site 536056002463 coenzyme B12 binding site [chemical binding]; other site 536056002464 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 536056002465 B12 binding site [chemical binding]; other site 536056002466 cobalt ligand [ion binding]; other site 536056002467 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 536056002468 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056002469 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 536056002470 putative dimerization interface [polypeptide binding]; other site 536056002471 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 536056002472 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 536056002473 tetramer (dimer of dimers) interface [polypeptide binding]; other site 536056002474 active site 536056002475 dimer interface [polypeptide binding]; other site 536056002476 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 536056002477 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 536056002478 ligand binding site [chemical binding]; other site 536056002479 NAD binding site [chemical binding]; other site 536056002480 tetramer interface [polypeptide binding]; other site 536056002481 catalytic site [active] 536056002482 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 536056002483 L-serine binding site [chemical binding]; other site 536056002484 ACT domain interface; other site 536056002485 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 536056002486 5-formyltetrahydrofolate cyclo-ligase family protein; Provisional; Region: PRK10333 536056002487 Z-ring-associated protein; Provisional; Region: PRK10972 536056002488 hypothetical protein; Reviewed; Region: PRK01736 536056002489 proline aminopeptidase P II; Provisional; Region: PRK10879 536056002490 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 536056002491 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 536056002492 active site 536056002493 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 536056002494 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 536056002495 oxidoreductase; Provisional; Region: PRK08013 536056002496 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 536056002497 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 536056002498 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 536056002499 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 536056002500 lipoyl attachment site [posttranslational modification]; other site 536056002501 glycine dehydrogenase; Provisional; Region: PRK05367 536056002502 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 536056002503 tetramer interface [polypeptide binding]; other site 536056002504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056002505 catalytic residue [active] 536056002506 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 536056002507 tetramer interface [polypeptide binding]; other site 536056002508 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056002509 catalytic residue [active] 536056002510 putative NAD(P)-binding oxidoreductase; Provisional; Region: PRK09730 536056002511 classical (c) SDRs; Region: SDR_c; cd05233 536056002512 NAD(P) binding site [chemical binding]; other site 536056002513 active site 536056002514 6-phospho-beta-glucosidase BglA; Provisional; Region: PRK15014 536056002515 beta-galactosidase; Region: BGL; TIGR03356 536056002516 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 536056002517 hemolysin; Provisional; Region: PRK15087 536056002518 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 536056002519 putative global regulator; Reviewed; Region: PRK09559 536056002520 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 536056002521 hypothetical protein; Provisional; Region: PRK10878 536056002522 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 536056002523 flavodoxin FldB; Provisional; Region: PRK12359 536056002524 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 536056002525 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 536056002526 active site 536056002527 Int/Topo IB signature motif; other site 536056002528 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 536056002529 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 536056002530 dimerization domain [polypeptide binding]; other site 536056002531 dimer interface [polypeptide binding]; other site 536056002532 catalytic residues [active] 536056002533 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 536056002534 DHH family; Region: DHH; pfam01368 536056002535 DHHA1 domain; Region: DHHA1; pfam02272 536056002536 peptide chain release factor 2; Validated; Region: prfB; PRK00578 536056002537 This domain is found in peptide chain release factors; Region: PCRF; smart00937 536056002538 RF-1 domain; Region: RF-1; pfam00472 536056002539 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 536056002540 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 536056002541 dimer interface [polypeptide binding]; other site 536056002542 putative anticodon binding site; other site 536056002543 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 536056002544 motif 1; other site 536056002545 active site 536056002546 motif 2; other site 536056002547 motif 3; other site 536056002548 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 536056002549 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 536056002550 active site 536056002551 metal binding site [ion binding]; metal-binding site 536056002552 nudix motif; other site 536056002553 xanthine permease; Region: pbuX; TIGR03173 536056002554 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12809 536056002555 4Fe-4S binding domain; Region: Fer4; pfam00037 536056002556 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 536056002557 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536056002558 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 536056002559 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 536056002560 guanine deaminase; Provisional; Region: PRK09228 536056002561 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 536056002562 active site 536056002563 uracil-xanthine permease; Region: ncs2; TIGR00801 536056002564 putative hypoxanthine oxidase; Provisional; Region: PRK09800 536056002565 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 536056002566 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 536056002567 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 536056002568 probable selenate reductase, FAD-binding subunit; Region: Se_sel_red_FAD; TIGR03312 536056002569 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 536056002570 putative selenium metabolism protein SsnA; Region: Se_ssnA; TIGR03314 536056002571 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 536056002572 active site 536056002573 putative substrate binding pocket [chemical binding]; other site 536056002574 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 536056002575 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 536056002576 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 536056002577 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536056002578 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 536056002579 Ligand binding site; other site 536056002580 metal-binding site 536056002581 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 536056002582 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 536056002583 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 536056002584 XdhC Rossmann domain; Region: XdhC_C; pfam13478 536056002585 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 536056002586 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 536056002587 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 536056002588 carbamate kinase; Reviewed; Region: PRK12686 536056002589 putative substrate binding site [chemical binding]; other site 536056002590 homodimer interface [polypeptide binding]; other site 536056002591 nucleotide binding site [chemical binding]; other site 536056002592 nucleotide binding site [chemical binding]; other site 536056002593 D-hydantoinase; Region: D-hydantoinase; TIGR02033 536056002594 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 536056002595 tetramer interface [polypeptide binding]; other site 536056002596 active site 536056002597 peptidase; Reviewed; Region: PRK13004 536056002598 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 536056002599 putative metal binding site [ion binding]; other site 536056002600 putative dimer interface [polypeptide binding]; other site 536056002601 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 536056002602 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 536056002603 catalytic residue [active] 536056002604 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 536056002605 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 536056002606 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 536056002607 GAF domain; Region: GAF; cl17456 536056002608 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 536056002609 PAS domain; Region: PAS; smart00091 536056002610 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 536056002611 Walker A motif; other site 536056002612 ATP binding site [chemical binding]; other site 536056002613 Walker B motif; other site 536056002614 arginine finger; other site 536056002615 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536056002616 xanthine dehydrogenase subunit XdhC; Provisional; Region: PRK09908 536056002617 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 536056002618 catalytic loop [active] 536056002619 iron binding site [ion binding]; other site 536056002620 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 536056002621 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 536056002622 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 536056002623 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 536056002624 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 536056002625 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 536056002626 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 536056002627 Peptidase family M23; Region: Peptidase_M23; pfam01551 536056002628 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 536056002629 IS2 repressor TnpA; Reviewed; Region: PRK09413 536056002630 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 536056002631 IS2 transposase TnpB; Reviewed; Region: PRK09409 536056002632 HTH-like domain; Region: HTH_21; pfam13276 536056002633 Integrase core domain; Region: rve; pfam00665 536056002634 Integrase core domain; Region: rve_3; pfam13683 536056002635 invasion protein OrgB; Provisional; Region: PRK15322 536056002636 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 536056002637 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 536056002638 N-acetyl-D-glucosamine binding site [chemical binding]; other site 536056002639 catalytic residue [active] 536056002640 transcriptional regulator; Provisional; Region: PRK11906 536056002641 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 536056002642 DNA binding site [nucleotide binding] 536056002643 Tetratricopeptide repeat; Region: TPR_2; pfam07719 536056002644 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 536056002645 Tetratricopeptide repeat; Region: TPR_3; pfam07720 536056002646 Tetratricopeptide repeat; Region: TPR_3; pfam07720 536056002647 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 536056002648 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 536056002649 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 536056002650 DNA binding residues [nucleotide binding] 536056002651 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 536056002652 serine transporter; Region: stp; TIGR00814 536056002653 putative acyltransferase; Provisional; Region: PRK05790 536056002654 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 536056002655 dimer interface [polypeptide binding]; other site 536056002656 active site 536056002657 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 536056002658 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 536056002659 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 536056002660 NADP binding site [chemical binding]; other site 536056002661 homodimer interface [polypeptide binding]; other site 536056002662 active site 536056002663 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 536056002664 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 536056002665 putative substrate translocation pore; other site 536056002666 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 536056002667 putative racemase; Provisional; Region: PRK10200 536056002668 aspartate racemase; Region: asp_race; TIGR00035 536056002669 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 536056002670 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056002671 The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold; Region: PBP2_LysR; cd08456 536056002672 putative dimerization interface [polypeptide binding]; other site 536056002673 diaminopimelate decarboxylase; Provisional; Region: PRK11165 536056002674 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 536056002675 active site 536056002676 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 536056002677 substrate binding site [chemical binding]; other site 536056002678 catalytic residues [active] 536056002679 dimer interface [polypeptide binding]; other site 536056002680 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 536056002681 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536056002682 DNA binding site [nucleotide binding] 536056002683 domain linker motif; other site 536056002684 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 536056002685 dimerization interface (closed form) [polypeptide binding]; other site 536056002686 ligand binding site [chemical binding]; other site 536056002687 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 536056002688 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 536056002689 putative acyl-acceptor binding pocket; other site 536056002690 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 536056002691 acyl-activating enzyme (AAE) consensus motif; other site 536056002692 putative AMP binding site [chemical binding]; other site 536056002693 lysophospholipid transporter LplT; Provisional; Region: PRK11195 536056002694 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 536056002695 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 536056002696 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 536056002697 active site 536056002698 catalytic tetrad [active] 536056002699 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 536056002700 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 536056002701 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 536056002702 putative DNA-binding cleft [nucleotide binding]; other site 536056002703 putative DNA clevage site; other site 536056002704 molecular lever; other site 536056002705 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 536056002706 putative active site [active] 536056002707 Ap4A binding site [chemical binding]; other site 536056002708 nudix motif; other site 536056002709 putative metal binding site [ion binding]; other site 536056002710 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 536056002711 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 536056002712 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 536056002713 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 536056002714 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 536056002715 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 536056002716 thymidylate synthase; Reviewed; Region: thyA; PRK01827 536056002717 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 536056002718 dimerization interface [polypeptide binding]; other site 536056002719 active site 536056002720 hypothetical protein; Provisional; Region: PRK10506 536056002721 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 536056002722 hypothetical protein; Provisional; Region: PRK10557 536056002723 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 536056002724 hypothetical protein; Provisional; Region: PRK11521 536056002725 hypothetical protein; Provisional; Region: PRK10332 536056002726 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 536056002727 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 536056002728 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 536056002729 protease3; Provisional; Region: PRK15101 536056002730 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 536056002731 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 536056002732 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 536056002733 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 536056002734 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 536056002735 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 536056002736 AAA domain; Region: AAA_30; pfam13604 536056002737 Family description; Region: UvrD_C_2; pfam13538 536056002738 N-acetylglutamate synthase; Validated; Region: PRK05279 536056002739 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 536056002740 putative feedback inhibition sensing region; other site 536056002741 putative nucleotide binding site [chemical binding]; other site 536056002742 putative substrate binding site [chemical binding]; other site 536056002743 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536056002744 Coenzyme A binding pocket [chemical binding]; other site 536056002745 AMIN domain; Region: AMIN; pfam11741 536056002746 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 536056002747 active site 536056002748 metal binding site [ion binding]; metal-binding site 536056002749 murein transglycosylase A; Provisional; Region: mltA; PRK11162 536056002750 MltA specific insert domain; Region: MltA; pfam03562 536056002751 3D domain; Region: 3D; pfam06725 536056002752 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 536056002753 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 536056002754 putative ATP binding site [chemical binding]; other site 536056002755 putative substrate interface [chemical binding]; other site 536056002756 CsdA-binding activator; Provisional; Region: PRK15019 536056002757 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 536056002758 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 536056002759 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536056002760 catalytic residue [active] 536056002761 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 536056002762 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 536056002763 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056002764 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 536056002765 dimerization interface [polypeptide binding]; other site 536056002766 substrate binding pocket [chemical binding]; other site 536056002767 hypothetical protein; Provisional; Region: PRK10873 536056002768 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 536056002769 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 536056002770 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 536056002771 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 536056002772 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 536056002773 L-fucose mutarotase; Provisional; Region: fucU; PRK15420 536056002774 L-fuculokinase; Provisional; Region: PRK10331 536056002775 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 536056002776 nucleotide binding site [chemical binding]; other site 536056002777 L-fucose isomerase; Provisional; Region: fucI; PRK10991 536056002778 L-fucose isomerase (FucIase); FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose during glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in blood group...; Region: L-fucose_isomerase; cd03556 536056002779 hexamer (dimer of trimers) interface [polypeptide binding]; other site 536056002780 trimer interface [polypeptide binding]; other site 536056002781 substrate binding site [chemical binding]; other site 536056002782 Mn binding site [ion binding]; other site 536056002783 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 536056002784 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 536056002785 putative substrate translocation pore; other site 536056002786 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; cd00398 536056002787 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 536056002788 intersubunit interface [polypeptide binding]; other site 536056002789 active site 536056002790 Zn2+ binding site [ion binding]; other site 536056002791 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 536056002792 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 536056002793 dimer interface [polypeptide binding]; other site 536056002794 active site 536056002795 metal binding site [ion binding]; metal-binding site 536056002796 flap endonuclease-like protein; Provisional; Region: PRK09482 536056002797 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 536056002798 active site 536056002799 metal binding site 1 [ion binding]; metal-binding site 536056002800 putative 5' ssDNA interaction site; other site 536056002801 metal binding site 3; metal-binding site 536056002802 metal binding site 2 [ion binding]; metal-binding site 536056002803 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 536056002804 putative DNA binding site [nucleotide binding]; other site 536056002805 putative metal binding site [ion binding]; other site 536056002806 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 536056002807 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 536056002808 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 536056002809 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 536056002810 serine transporter; Region: stp; TIGR00814 536056002811 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 536056002812 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 536056002813 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 536056002814 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 536056002815 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 536056002816 SecY interacting protein Syd; Provisional; Region: PRK04968 536056002817 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3098 536056002818 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 536056002819 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 536056002820 probable active site [active] 536056002821 flavodoxin; Provisional; Region: PRK08105 536056002822 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 536056002823 D-galactonate transporter; Region: 2A0114; TIGR00893 536056002824 putative substrate translocation pore; other site 536056002825 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 536056002826 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 536056002827 active site 536056002828 tetramer interface [polypeptide binding]; other site 536056002829 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 536056002830 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 536056002831 active site 536056002832 tetramer interface [polypeptide binding]; other site 536056002833 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 536056002834 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 536056002835 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 536056002836 dimerization interface [polypeptide binding]; other site 536056002837 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 536056002838 dimer interface [polypeptide binding]; other site 536056002839 phosphorylation site [posttranslational modification] 536056002840 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 536056002841 ATP binding site [chemical binding]; other site 536056002842 Mg2+ binding site [ion binding]; other site 536056002843 G-X-G motif; other site 536056002844 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 536056002845 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 536056002846 active site 536056002847 phosphorylation site [posttranslational modification] 536056002848 intermolecular recognition site; other site 536056002849 dimerization interface [polypeptide binding]; other site 536056002850 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 536056002851 putative binding surface; other site 536056002852 active site 536056002853 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 536056002854 TRAM domain; Region: TRAM; pfam01938 536056002855 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 536056002856 S-adenosylmethionine binding site [chemical binding]; other site 536056002857 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 536056002858 HD domain; Region: HD_4; pfam13328 536056002859 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 536056002860 synthetase active site [active] 536056002861 NTP binding site [chemical binding]; other site 536056002862 metal binding site [ion binding]; metal-binding site 536056002863 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 536056002864 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 536056002865 antitoxin MazE; Provisional; Region: PRK09798 536056002866 toxin MazF; Provisional; Region: PRK09907 536056002867 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 536056002868 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 536056002869 homodimer interface [polypeptide binding]; other site 536056002870 metal binding site [ion binding]; metal-binding site 536056002871 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 536056002872 homodimer interface [polypeptide binding]; other site 536056002873 active site 536056002874 putative chemical substrate binding site [chemical binding]; other site 536056002875 metal binding site [ion binding]; metal-binding site 536056002876 CTP synthetase; Validated; Region: pyrG; PRK05380 536056002877 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 536056002878 Catalytic site [active] 536056002879 active site 536056002880 UTP binding site [chemical binding]; other site 536056002881 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 536056002882 active site 536056002883 putative oxyanion hole; other site 536056002884 catalytic triad [active] 536056002885 enolase; Provisional; Region: eno; PRK00077 536056002886 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 536056002887 dimer interface [polypeptide binding]; other site 536056002888 metal binding site [ion binding]; metal-binding site 536056002889 substrate binding pocket [chemical binding]; other site 536056002890 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 536056002891 Repair protein; Region: Repair_PSII; pfam04536 536056002892 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 536056002893 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 536056002894 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 536056002895 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 536056002896 nucleotide binding site [chemical binding]; other site 536056002897 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536056002898 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 536056002899 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 536056002900 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 536056002901 NADP binding site [chemical binding]; other site 536056002902 homodimer interface [polypeptide binding]; other site 536056002903 active site 536056002904 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 536056002905 FAD binding domain; Region: FAD_binding_4; pfam01565 536056002906 benzoate transport; Region: 2A0115; TIGR00895 536056002907 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 536056002908 putative substrate translocation pore; other site 536056002909 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 536056002910 Ligand binding site [chemical binding]; other site 536056002911 Electron transfer flavoprotein domain; Region: ETF; pfam01012 536056002912 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 536056002913 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 536056002914 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 536056002915 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 536056002916 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 536056002917 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 536056002918 putative oxidoreductase FixC; Provisional; Region: PRK10157 536056002919 6-pyruvoyl tetrahydropterin synthase (PTPS). 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 uptake by a...; Region: PTPS; cd00470 536056002920 homohexamer interface [polypeptide binding]; other site 536056002921 putative substrate stabilizing pore; other site 536056002922 pterin binding site; other site 536056002923 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 536056002924 Flavodoxin; Region: Flavodoxin_1; pfam00258 536056002925 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 536056002926 FAD binding pocket [chemical binding]; other site 536056002927 FAD binding motif [chemical binding]; other site 536056002928 catalytic residues [active] 536056002929 NAD binding pocket [chemical binding]; other site 536056002930 phosphate binding motif [ion binding]; other site 536056002931 beta-alpha-beta structure motif; other site 536056002932 sulfite reductase subunit beta; Provisional; Region: PRK13504 536056002933 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 536056002934 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 536056002935 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 536056002936 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 536056002937 Active Sites [active] 536056002938 helicase Cas3; Provisional; Region: PRK09694 536056002939 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 536056002940 CRISPR/Cas system-associated protein Cas3; Region: Cas3_I; cd09639 536056002941 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09669 536056002942 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09670 536056002943 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cd09646 536056002944 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 536056002945 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 536056002946 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09664 536056002947 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 536056002948 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 536056002949 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 536056002950 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 536056002951 metal binding site [ion binding]; metal-binding site 536056002952 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 536056002953 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 536056002954 Active Sites [active] 536056002955 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 536056002956 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 536056002957 CysD dimerization site [polypeptide binding]; other site 536056002958 G1 box; other site 536056002959 putative GEF interaction site [polypeptide binding]; other site 536056002960 GTP/Mg2+ binding site [chemical binding]; other site 536056002961 Switch I region; other site 536056002962 G2 box; other site 536056002963 G3 box; other site 536056002964 Switch II region; other site 536056002965 G4 box; other site 536056002966 G5 box; other site 536056002967 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 536056002968 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 536056002969 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...; Region: APSK; cd02027 536056002970 ligand-binding site [chemical binding]; other site 536056002971 Protein of unknown function (DUF3561); Region: DUF3561; pfam12084 536056002972 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 536056002973 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 536056002974 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 536056002975 substrate binding site; other site 536056002976 dimer interface; other site 536056002977 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 536056002978 homotrimer interaction site [polypeptide binding]; other site 536056002979 zinc binding site [ion binding]; other site 536056002980 CDP-binding sites; other site 536056002981 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 536056002982 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 536056002983 Permutation of conserved domain; other site 536056002984 active site 536056002985 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 536056002986 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 536056002987 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 536056002988 S-adenosylmethionine binding site [chemical binding]; other site 536056002989 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 536056002990 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 536056002991 Peptidase family M23; Region: Peptidase_M23; pfam01551 536056002992 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 536056002993 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 536056002994 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536056002995 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 536056002996 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 536056002997 DNA binding residues [nucleotide binding] 536056002998 putative transporter; Provisional; Region: PRK09821 536056002999 GntP family permease; Region: GntP_permease; pfam02447 536056003000 hypothetical protein; Provisional; Region: PRK09989 536056003001 putative aldolase; Validated; Region: PRK08130 536056003002 active site 536056003003 intersubunit interface [polypeptide binding]; other site 536056003004 Zn2+ binding site [ion binding]; other site 536056003005 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 536056003006 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 536056003007 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 536056003008 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 536056003009 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 536056003010 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 536056003011 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 536056003012 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 536056003013 active site 536056003014 metal binding site [ion binding]; metal-binding site 536056003015 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 536056003016 MutS domain I; Region: MutS_I; pfam01624 536056003017 MutS domain II; Region: MutS_II; pfam05188 536056003018 MutS domain III; Region: MutS_III; pfam05192 536056003019 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 536056003020 Walker A/P-loop; other site 536056003021 ATP binding site [chemical binding]; other site 536056003022 Q-loop/lid; other site 536056003023 ABC transporter signature motif; other site 536056003024 Walker B; other site 536056003025 D-loop; other site 536056003026 H-loop/switch region; other site 536056003027 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 536056003028 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 536056003029 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 536056003030 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 536056003031 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 536056003032 Walker A motif; other site 536056003033 ATP binding site [chemical binding]; other site 536056003034 Walker B motif; other site 536056003035 arginine finger; other site 536056003036 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 536056003037 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 536056003038 dimerization interface [polypeptide binding]; other site 536056003039 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 536056003040 ATP binding site [chemical binding]; other site 536056003041 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 536056003042 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 536056003043 hydrogenase assembly chaperone; Provisional; Region: PRK10409 536056003044 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 536056003045 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 536056003046 hydrogenase nickel incorporation protein; Validated; Region: hypA; PRK03681 536056003047 formate hydrogenlyase regulatory protein HycA; Provisional; Region: PRK10198 536056003048 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 536056003049 formate hydrogenlyase subunit 3; Reviewed; Region: PRK08042 536056003050 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 536056003051 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 536056003052 NADH dehydrogenase; Region: NADHdh; cl00469 536056003053 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 536056003054 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 536056003055 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 536056003056 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 536056003057 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 536056003058 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 536056003059 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 536056003060 Endopeptidases belonging to membrane-bound hydrogen evolving hydrogenase group. In hydrogenase 3 from E coli, the maturation of the large subunit (HycE) requires the cleavage of a C-terminal peptide by the endopeptidase HycI, before the final formation...; Region: H2MP_MemB-H2evol; cd06067 536056003061 nickel binding site [ion binding]; other site 536056003062 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 536056003063 beta-galactosidase; Region: BGL; TIGR03356 536056003064 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 536056003065 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 536056003066 active site turn [active] 536056003067 phosphorylation site [posttranslational modification] 536056003068 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 536056003069 Transcriptional regulators [Transcription]; Region: PurR; COG1609 536056003070 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536056003071 DNA binding site [nucleotide binding] 536056003072 domain linker motif; other site 536056003073 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 536056003074 dimerization interface (closed form) [polypeptide binding]; other site 536056003075 ligand binding site [chemical binding]; other site 536056003076 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 536056003077 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 536056003078 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 536056003079 Acylphosphatase; Region: Acylphosphatase; pfam00708 536056003080 HypF finger; Region: zf-HYPF; pfam07503 536056003081 HypF finger; Region: zf-HYPF; pfam07503 536056003082 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 536056003083 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 536056003084 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536056003085 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 536056003086 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 536056003087 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 536056003088 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 536056003089 iron binding site [ion binding]; other site 536056003090 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 536056003091 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 536056003092 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 536056003093 Walker A motif; other site 536056003094 ATP binding site [chemical binding]; other site 536056003095 Walker B motif; other site 536056003096 arginine finger; other site 536056003097 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 536056003098 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 536056003099 putative active site [active] 536056003100 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 536056003101 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 536056003102 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 536056003103 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 536056003104 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 536056003105 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 536056003106 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 536056003107 putative NAD(P) binding site [chemical binding]; other site 536056003108 active site 536056003109 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional; Region: PRK10377 536056003110 PTS system, glucitol/sorbitol-specific, IIBC component; Region: EIIBC-GUT; TIGR00825 536056003111 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 536056003112 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 536056003113 PTS system, glucitol/sorbitol-specific, IIC component; Region: EII-GUT; TIGR00821 536056003114 Transglycosylase SLT domain; Region: SLT_2; pfam13406 536056003115 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 536056003116 N-acetyl-D-glucosamine binding site [chemical binding]; other site 536056003117 hypothetical protein; Validated; Region: PRK03661 536056003118 recombinase A; Provisional; Region: recA; PRK09354 536056003119 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 536056003120 hexamer interface [polypeptide binding]; other site 536056003121 Walker A motif; other site 536056003122 ATP binding site [chemical binding]; other site 536056003123 Walker B motif; other site 536056003124 recombination regulator RecX; Reviewed; Region: recX; PRK00117 536056003125 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 536056003126 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 536056003127 motif 1; other site 536056003128 active site 536056003129 motif 2; other site 536056003130 motif 3; other site 536056003131 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 536056003132 DHHA1 domain; Region: DHHA1; pfam02272 536056003133 carbon storage regulator; Provisional; Region: PRK01712 536056003134 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 536056003135 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 536056003136 motif II; other site 536056003137 Predicted membrane protein [Function unknown]; Region: COG1238 536056003138 glutamate--cysteine ligase; Provisional; Region: PRK02107 536056003139 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 536056003140 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 536056003141 putative substrate translocation pore; other site 536056003142 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 536056003143 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 536056003144 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536056003145 HlyD family secretion protein; Region: HlyD_3; pfam13437 536056003146 transcriptional repressor MprA; Provisional; Region: PRK10870 536056003147 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 536056003148 putative L-valine exporter; Provisional; Region: PRK10408 536056003149 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 536056003150 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 536056003151 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 536056003152 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 536056003153 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 536056003154 dimer interface [polypeptide binding]; other site 536056003155 conserved gate region; other site 536056003156 putative PBP binding loops; other site 536056003157 ABC-ATPase subunit interface; other site 536056003158 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 536056003159 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 536056003160 Walker A/P-loop; other site 536056003161 ATP binding site [chemical binding]; other site 536056003162 Q-loop/lid; other site 536056003163 ABC transporter signature motif; other site 536056003164 Walker B; other site 536056003165 D-loop; other site 536056003166 H-loop/switch region; other site 536056003167 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 536056003168 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 536056003169 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 536056003170 dimer interface [polypeptide binding]; other site 536056003171 putative radical transfer pathway; other site 536056003172 diiron center [ion binding]; other site 536056003173 tyrosyl radical; other site 536056003174 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 536056003175 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 536056003176 Class I ribonucleotide reductase; Region: RNR_I; cd01679 536056003177 active site 536056003178 dimer interface [polypeptide binding]; other site 536056003179 catalytic residues [active] 536056003180 effector binding site; other site 536056003181 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 536056003182 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 536056003183 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 536056003184 catalytic residues [active] 536056003185 hypothetical protein; Provisional; Region: PRK10132 536056003186 hypothetical protein; Provisional; Region: PRK10556 536056003187 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 536056003188 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 536056003189 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 536056003190 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YgaP, and similar uncharacterized putative rhodanese-related sulfurtransferases; Region: RHOD_YgaP; cd01527 536056003191 active site residue [active] 536056003192 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 536056003193 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 536056003194 dimerization interface [polypeptide binding]; other site 536056003195 putative DNA binding site [nucleotide binding]; other site 536056003196 Transcriptional regulators [Transcription]; Region: MarR; COG1846 536056003197 putative Zn2+ binding site [ion binding]; other site 536056003198 Uncharacterized homolog of Blt101 [Function unknown]; Region: COG0401 536056003199 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 536056003200 bacterial OsmY and nodulation domain; Region: BON; smart00749 536056003201 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 536056003202 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 536056003203 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056003204 DNA-binding site [nucleotide binding]; DNA binding site 536056003205 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 536056003206 gamma-aminobutyrate transporter; Provisional; Region: PRK10197 536056003207 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 536056003208 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 536056003209 inhibitor-cofactor binding pocket; inhibition site 536056003210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056003211 catalytic residue [active] 536056003212 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 536056003213 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 536056003214 tetramerization interface [polypeptide binding]; other site 536056003215 NAD(P) binding site [chemical binding]; other site 536056003216 catalytic residues [active] 536056003217 Predicted dehydrogenase [General function prediction only]; Region: COG0579 536056003218 hydroxyglutarate oxidase; Provisional; Region: PRK11728 536056003219 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 536056003220 substrate binding pocket [chemical binding]; other site 536056003221 active site 536056003222 iron coordination sites [ion binding]; other site 536056003223 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 536056003224 hypothetical protein; Provisional; Region: PRK09945 536056003225 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 536056003226 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 536056003227 Autotransporter beta-domain; Region: Autotransporter; pfam03797 536056003228 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 536056003229 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 536056003230 Protein of unknown function (DUF987); Region: DUF987; pfam06174 536056003231 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 536056003232 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 536056003233 MPN+ (JAMM) motif; other site 536056003234 Zinc-binding site [ion binding]; other site 536056003235 Antirestriction protein; Region: Antirestrict; pfam03230 536056003236 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 536056003237 Predicted transcriptional regulator [Transcription]; Region: COG2378 536056003238 Predicted transcriptional regulator [Transcription]; Region: COG2378 536056003239 HTH domain; Region: HTH_11; cl17392 536056003240 WYL domain; Region: WYL; pfam13280 536056003241 Domain of unknown function (DUF932); Region: DUF932; pfam06067 536056003242 Predicted GTPase [General function prediction only]; Region: COG3596 536056003243 YfjP GTPase; Region: YfjP; cd11383 536056003244 G1 box; other site 536056003245 GTP/Mg2+ binding site [chemical binding]; other site 536056003246 Switch I region; other site 536056003247 G2 box; other site 536056003248 Switch II region; other site 536056003249 G3 box; other site 536056003250 G4 box; other site 536056003251 G5 box; other site 536056003252 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 536056003253 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 536056003254 Superfamily II helicase [General function prediction only]; Region: COG1204 536056003255 DEAD/DEAH box helicase; Region: DEAD; pfam00270 536056003256 helicase superfamily c-terminal domain; Region: HELICc; smart00490 536056003257 nucleotide binding region [chemical binding]; other site 536056003258 ATP-binding site [chemical binding]; other site 536056003259 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 536056003260 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 536056003261 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 536056003262 integrase; Provisional; Region: PRK09692 536056003263 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 536056003264 active site 536056003265 Int/Topo IB signature motif; other site 536056003266 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 536056003267 SmpB-tmRNA interface; other site 536056003268 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 536056003269 putative coenzyme Q binding site [chemical binding]; other site 536056003270 hypothetical protein; Validated; Region: PRK01777 536056003271 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 536056003272 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 536056003273 recombination and repair protein; Provisional; Region: PRK10869 536056003274 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 536056003275 Walker A/P-loop; other site 536056003276 ATP binding site [chemical binding]; other site 536056003277 Q-loop/lid; other site 536056003278 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 536056003279 Q-loop/lid; other site 536056003280 ABC transporter signature motif; other site 536056003281 Walker B; other site 536056003282 D-loop; other site 536056003283 H-loop/switch region; other site 536056003284 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 536056003285 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 536056003286 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 536056003287 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 536056003288 dimer interface [polypeptide binding]; other site 536056003289 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 536056003290 hypothetical protein; Provisional; Region: PRK11573 536056003291 Domain of unknown function DUF21; Region: DUF21; pfam01595 536056003292 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 536056003293 Transporter associated domain; Region: CorC_HlyC; smart01091 536056003294 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 536056003295 signal recognition particle protein; Provisional; Region: PRK10867 536056003296 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 536056003297 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 536056003298 P loop; other site 536056003299 GTP binding site [chemical binding]; other site 536056003300 Signal peptide binding domain; Region: SRP_SPB; pfam02978 536056003301 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 536056003302 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 536056003303 RimM N-terminal domain; Region: RimM; pfam01782 536056003304 PRC-barrel domain; Region: PRC; pfam05239 536056003305 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 536056003306 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 536056003307 putative outer membrane lipoprotein; Provisional; Region: PRK09967 536056003308 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536056003309 ligand binding site [chemical binding]; other site 536056003310 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 536056003311 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536056003312 metal binding site [ion binding]; metal-binding site 536056003313 active site 536056003314 I-site; other site 536056003315 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 536056003316 lipoprotein; Provisional; Region: PRK11443 536056003317 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 536056003318 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 536056003319 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 536056003320 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 536056003321 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 536056003322 prephenate dehydrogenase; Validated; Region: PRK08507 536056003323 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 536056003324 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 536056003325 Prephenate dehydratase; Region: PDT; pfam00800 536056003326 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 536056003327 putative L-Phe binding site [chemical binding]; other site 536056003328 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 536056003329 30S subunit binding site; other site 536056003330 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 536056003331 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 536056003332 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 536056003333 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 536056003334 RNA binding surface [nucleotide binding]; other site 536056003335 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 536056003336 active site 536056003337 hypothetical protein; Provisional; Region: PRK10723 536056003338 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 536056003339 protein disaggregation chaperone; Provisional; Region: PRK10865 536056003340 Clp amino terminal domain; Region: Clp_N; pfam02861 536056003341 Clp amino terminal domain; Region: Clp_N; pfam02861 536056003342 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 536056003343 Walker A motif; other site 536056003344 ATP binding site [chemical binding]; other site 536056003345 Walker B motif; other site 536056003346 arginine finger; other site 536056003347 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 536056003348 Walker A motif; other site 536056003349 ATP binding site [chemical binding]; other site 536056003350 Walker B motif; other site 536056003351 arginine finger; other site 536056003352 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 536056003353 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 536056003354 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 536056003355 putative substrate translocation pore; other site 536056003356 lipoprotein; Provisional; Region: PRK10759 536056003357 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 536056003358 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 536056003359 domain interface [polypeptide binding]; other site 536056003360 putative active site [active] 536056003361 catalytic site [active] 536056003362 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 536056003363 domain interface [polypeptide binding]; other site 536056003364 putative active site [active] 536056003365 catalytic site [active] 536056003366 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 536056003367 CoA binding domain; Region: CoA_binding_2; pfam13380 536056003368 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 536056003369 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 536056003370 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 536056003371 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 536056003372 Uncharacterized conserved protein [Function unknown]; Region: COG3148 536056003373 thioredoxin 2; Provisional; Region: PRK10996 536056003374 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 536056003375 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 536056003376 catalytic residues [active] 536056003377 putative methyltransferase; Provisional; Region: PRK10864 536056003378 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 536056003379 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 536056003380 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 536056003381 ligand binding site [chemical binding]; other site 536056003382 active site 536056003383 UGI interface [polypeptide binding]; other site 536056003384 catalytic site [active] 536056003385 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 536056003386 cysteine/O-acetylserine exporter; Provisional; Region: PRK10323 536056003387 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536056003388 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056003389 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 536056003390 dimerization interface [polypeptide binding]; other site 536056003391 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 536056003392 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 536056003393 ATP binding site [chemical binding]; other site 536056003394 Mg++ binding site [ion binding]; other site 536056003395 motif III; other site 536056003396 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 536056003397 nucleotide binding region [chemical binding]; other site 536056003398 ATP-binding site [chemical binding]; other site 536056003399 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 536056003400 Methyltransferase domain; Region: Methyltransf_26; pfam13659 536056003401 L-aspartate oxidase; Provisional; Region: PRK09077 536056003402 L-aspartate oxidase; Provisional; Region: PRK06175 536056003403 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 536056003404 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 536056003405 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536056003406 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 536056003407 DNA binding residues [nucleotide binding] 536056003408 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 536056003409 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 536056003410 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 536056003411 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 536056003412 anti-sigma E factor; Provisional; Region: rseB; PRK09455 536056003413 SoxR reducing system protein RseC; Provisional; Region: PRK10862 536056003414 GTP-binding protein LepA; Provisional; Region: PRK05433 536056003415 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 536056003416 G1 box; other site 536056003417 putative GEF interaction site [polypeptide binding]; other site 536056003418 GTP/Mg2+ binding site [chemical binding]; other site 536056003419 Switch I region; other site 536056003420 G2 box; other site 536056003421 G3 box; other site 536056003422 Switch II region; other site 536056003423 G4 box; other site 536056003424 G5 box; other site 536056003425 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 536056003426 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 536056003427 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 536056003428 signal peptidase I; Provisional; Region: PRK10861 536056003429 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 536056003430 Catalytic site [active] 536056003431 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 536056003432 ribonuclease III; Reviewed; Region: rnc; PRK00102 536056003433 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 536056003434 dimerization interface [polypeptide binding]; other site 536056003435 active site 536056003436 metal binding site [ion binding]; metal-binding site 536056003437 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 536056003438 dsRNA binding site [nucleotide binding]; other site 536056003439 GTPase Era; Reviewed; Region: era; PRK00089 536056003440 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 536056003441 G1 box; other site 536056003442 GTP/Mg2+ binding site [chemical binding]; other site 536056003443 Switch I region; other site 536056003444 G2 box; other site 536056003445 Switch II region; other site 536056003446 G3 box; other site 536056003447 G4 box; other site 536056003448 G5 box; other site 536056003449 KH domain; Region: KH_2; pfam07650 536056003450 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 536056003451 Recombination protein O N terminal; Region: RecO_N; pfam11967 536056003452 Recombination protein O C terminal; Region: RecO_C; pfam02565 536056003453 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 536056003454 active site 536056003455 hydrophilic channel; other site 536056003456 dimerization interface [polypeptide binding]; other site 536056003457 catalytic residues [active] 536056003458 active site lid [active] 536056003459 holo-[acyl-carrier-protein] synthase; Region: acpS; TIGR00516 536056003460 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 536056003461 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 536056003462 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 536056003463 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 536056003464 putative active site [active] 536056003465 hypothetical protein; Provisional; Region: PRK11590 536056003466 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 536056003467 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 536056003468 nucleoside/Zn binding site; other site 536056003469 dimer interface [polypeptide binding]; other site 536056003470 catalytic motif [active] 536056003471 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 536056003472 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 536056003473 substrate binding pocket [chemical binding]; other site 536056003474 membrane-bound complex binding site; other site 536056003475 hinge residues; other site 536056003476 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 536056003477 N-acetyl-D-glucosamine binding site [chemical binding]; other site 536056003478 catalytic residue [active] 536056003479 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 536056003480 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 536056003481 dimerization interface [polypeptide binding]; other site 536056003482 ATP binding site [chemical binding]; other site 536056003483 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 536056003484 dimerization interface [polypeptide binding]; other site 536056003485 ATP binding site [chemical binding]; other site 536056003486 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 536056003487 putative active site [active] 536056003488 catalytic triad [active] 536056003489 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 536056003490 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 536056003491 dimer interface [polypeptide binding]; other site 536056003492 phosphorylation site [posttranslational modification] 536056003493 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 536056003494 ATP binding site [chemical binding]; other site 536056003495 Mg2+ binding site [ion binding]; other site 536056003496 G-X-G motif; other site 536056003497 hypothetical protein; Provisional; Region: PRK10722 536056003498 response regulator GlrR; Provisional; Region: PRK15115 536056003499 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 536056003500 active site 536056003501 phosphorylation site [posttranslational modification] 536056003502 intermolecular recognition site; other site 536056003503 dimerization interface [polypeptide binding]; other site 536056003504 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 536056003505 Walker A motif; other site 536056003506 ATP binding site [chemical binding]; other site 536056003507 Walker B motif; other site 536056003508 arginine finger; other site 536056003509 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 536056003510 Nitrogen regulatory protein P-II; Region: P-II; smart00938 536056003511 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 536056003512 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 536056003513 heme-binding site [chemical binding]; other site 536056003514 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 536056003515 FAD binding pocket [chemical binding]; other site 536056003516 FAD binding motif [chemical binding]; other site 536056003517 phosphate binding motif [ion binding]; other site 536056003518 beta-alpha-beta structure motif; other site 536056003519 NAD binding pocket [chemical binding]; other site 536056003520 Heme binding pocket [chemical binding]; other site 536056003521 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 536056003522 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 536056003523 dimer interface [polypeptide binding]; other site 536056003524 active site 536056003525 glycine-pyridoxal phosphate binding site [chemical binding]; other site 536056003526 folate binding site [chemical binding]; other site 536056003527 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 536056003528 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 536056003529 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 536056003530 nucleotide binding site [chemical binding]; other site 536056003531 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 536056003532 TPR motif; other site 536056003533 Tetratricopeptide repeat; Region: TPR_16; pfam13432 536056003534 binding surface 536056003535 TPR repeat; Region: TPR_11; pfam13414 536056003536 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 536056003537 TPR motif; other site 536056003538 binding surface 536056003539 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 536056003540 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 536056003541 ligand binding site [chemical binding]; other site 536056003542 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 536056003543 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 536056003544 Walker A/P-loop; other site 536056003545 ATP binding site [chemical binding]; other site 536056003546 Q-loop/lid; other site 536056003547 ABC transporter signature motif; other site 536056003548 Walker B; other site 536056003549 D-loop; other site 536056003550 H-loop/switch region; other site 536056003551 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 536056003552 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536056003553 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 536056003554 TM-ABC transporter signature motif; other site 536056003555 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 536056003556 L-threonine dehydrogenase (TDH)-like; Region: THR_DH_like; cd08239 536056003557 putative NAD(P) binding site [chemical binding]; other site 536056003558 catalytic Zn binding site [ion binding]; other site 536056003559 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 536056003560 active site 536056003561 catalytic residues [active] 536056003562 Predicted membrane protein [Function unknown]; Region: COG2259 536056003563 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 536056003564 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536056003565 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 536056003566 cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase (BphB)-like, classical (c) SDRs; Region: BphB-like_SDR_c; cd05348 536056003567 NAD binding site [chemical binding]; other site 536056003568 active site 536056003569 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 536056003570 [2Fe-2S] cluster binding site [ion binding]; other site 536056003571 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 536056003572 inter-subunit interface; other site 536056003573 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 536056003574 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 536056003575 iron-sulfur cluster [ion binding]; other site 536056003576 [2Fe-2S] cluster binding site [ion binding]; other site 536056003577 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 536056003578 beta subunit interface [polypeptide binding]; other site 536056003579 alpha subunit interface [polypeptide binding]; other site 536056003580 active site 536056003581 substrate binding site [chemical binding]; other site 536056003582 Fe binding site [ion binding]; other site 536056003583 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 536056003584 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056003585 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 536056003586 dimerization interface [polypeptide binding]; other site 536056003587 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 536056003588 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 536056003589 putative substrate translocation pore; other site 536056003590 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 536056003591 PRD domain; Region: PRD; pfam00874 536056003592 PRD domain; Region: PRD; pfam00874 536056003593 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 536056003594 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 536056003595 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 536056003596 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 536056003597 active site 536056003598 dimerization interface [polypeptide binding]; other site 536056003599 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 536056003600 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 536056003601 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 536056003602 Rrf2 family protein; Region: rrf2_super; TIGR00738 536056003603 cysteine desulfurase; Provisional; Region: PRK14012 536056003604 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 536056003605 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536056003606 catalytic residue [active] 536056003607 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 536056003608 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 536056003609 trimerization site [polypeptide binding]; other site 536056003610 active site 536056003611 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 536056003612 co-chaperone HscB; Provisional; Region: hscB; PRK05014 536056003613 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 536056003614 HSP70 interaction site [polypeptide binding]; other site 536056003615 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 536056003616 chaperone protein HscA; Provisional; Region: hscA; PRK05183 536056003617 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 536056003618 nucleotide binding site [chemical binding]; other site 536056003619 putative NEF/HSP70 interaction site [polypeptide binding]; other site 536056003620 SBD interface [polypeptide binding]; other site 536056003621 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 536056003622 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 536056003623 catalytic loop [active] 536056003624 iron binding site [ion binding]; other site 536056003625 hypothetical protein; Provisional; Region: PRK10721 536056003626 aminopeptidase B; Provisional; Region: PRK05015 536056003627 Peptidase; Region: DUF3663; pfam12404 536056003628 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 536056003629 interface (dimer of trimers) [polypeptide binding]; other site 536056003630 Substrate-binding/catalytic site; other site 536056003631 Zn-binding sites [ion binding]; other site 536056003632 enhanced serine sensitivity protein SseB; Provisional; Region: PRK11611 536056003633 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 536056003634 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 536056003635 active site residue [active] 536056003636 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 536056003637 active site residue [active] 536056003638 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 536056003639 MG2 domain; Region: A2M_N; pfam01835 536056003640 Alpha-2-macroglobulin family; Region: A2M; pfam00207 536056003641 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 536056003642 surface patch; other site 536056003643 thioester region; other site 536056003644 specificity defining residues; other site 536056003645 penicillin-binding protein 1C; Provisional; Region: PRK11240 536056003646 Transglycosylase; Region: Transgly; pfam00912 536056003647 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 536056003648 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 536056003649 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 536056003650 active site 536056003651 multimer interface [polypeptide binding]; other site 536056003652 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 536056003653 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 536056003654 FeS/SAM binding site; other site 536056003655 cytoskeletal protein RodZ; Provisional; Region: PRK10856 536056003656 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 536056003657 non-specific DNA binding site [nucleotide binding]; other site 536056003658 salt bridge; other site 536056003659 sequence-specific DNA binding site [nucleotide binding]; other site 536056003660 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 536056003661 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 536056003662 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 536056003663 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 536056003664 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 536056003665 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 536056003666 dimer interface [polypeptide binding]; other site 536056003667 motif 1; other site 536056003668 active site 536056003669 motif 2; other site 536056003670 motif 3; other site 536056003671 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 536056003672 anticodon binding site; other site 536056003673 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 536056003674 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 536056003675 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cd00216 536056003676 Trp docking motif [polypeptide binding]; other site 536056003677 active site 536056003678 GTP-binding protein Der; Reviewed; Region: PRK00093 536056003679 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 536056003680 G1 box; other site 536056003681 GTP/Mg2+ binding site [chemical binding]; other site 536056003682 Switch I region; other site 536056003683 G2 box; other site 536056003684 Switch II region; other site 536056003685 G3 box; other site 536056003686 G4 box; other site 536056003687 G5 box; other site 536056003688 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 536056003689 G1 box; other site 536056003690 GTP/Mg2+ binding site [chemical binding]; other site 536056003691 Switch I region; other site 536056003692 G2 box; other site 536056003693 G3 box; other site 536056003694 Switch II region; other site 536056003695 G4 box; other site 536056003696 G5 box; other site 536056003697 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 536056003698 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 536056003699 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 536056003700 generic binding surface II; other site 536056003701 generic binding surface I; other site 536056003702 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 536056003703 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 536056003704 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 536056003705 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 536056003706 active site 536056003707 GMP synthase; Reviewed; Region: guaA; PRK00074 536056003708 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 536056003709 AMP/PPi binding site [chemical binding]; other site 536056003710 candidate oxyanion hole; other site 536056003711 catalytic triad [active] 536056003712 potential glutamine specificity residues [chemical binding]; other site 536056003713 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 536056003714 ATP Binding subdomain [chemical binding]; other site 536056003715 Ligand Binding sites [chemical binding]; other site 536056003716 Dimerization subdomain; other site 536056003717 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 536056003718 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 536056003719 MASE1; Region: MASE1; pfam05231 536056003720 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536056003721 diguanylate cyclase; Region: GGDEF; smart00267 536056003722 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 536056003723 exopolyphosphatase; Provisional; Region: PRK10854 536056003724 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 536056003725 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 536056003726 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 536056003727 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 536056003728 Catalytic C-terminal domain, first repeat, of prokaryotic polyphosphate kinase 1 and similar proteins; Region: PLDc_PPK1_C1; cd09114 536056003729 domain interface [polypeptide binding]; other site 536056003730 active site 536056003731 catalytic site [active] 536056003732 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 536056003733 putative active site [active] 536056003734 catalytic site [active] 536056003735 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 536056003736 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 536056003737 active site 536056003738 substrate binding site [chemical binding]; other site 536056003739 cosubstrate binding site; other site 536056003740 catalytic site [active] 536056003741 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 536056003742 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 536056003743 dimerization interface [polypeptide binding]; other site 536056003744 putative ATP binding site [chemical binding]; other site 536056003745 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536056003746 active site 536056003747 uracil transporter; Provisional; Region: PRK10720 536056003748 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 536056003749 DNA replication initiation factor; Provisional; Region: PRK08084 536056003750 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 536056003751 ArsC family; Region: ArsC; pfam03960 536056003752 catalytic residues [active] 536056003753 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 536056003754 Peptidase family M48; Region: Peptidase_M48; cl12018 536056003755 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 536056003756 Domain of unknown function DUF20; Region: UPF0118; pfam01594 536056003757 putative formate transporter; Provisional; Region: focB; PRK09713 536056003758 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 536056003759 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 536056003760 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 536056003761 Walker A motif; other site 536056003762 ATP binding site [chemical binding]; other site 536056003763 Walker B motif; other site 536056003764 arginine finger; other site 536056003765 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536056003766 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 536056003767 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 536056003768 hydrogenase 4 subunit H; Validated; Region: PRK08222 536056003769 4Fe-4S binding domain; Region: Fer4; pfam00037 536056003770 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 536056003771 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 536056003772 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 536056003773 hydrogenase 4 subunit F; Validated; Region: PRK06458 536056003774 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 536056003775 hydrogenase 4 membrane subunit; Provisional; Region: hyfE; PRK11492 536056003776 hydrogenase 4 subunit D; Validated; Region: PRK06525 536056003777 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 536056003778 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 536056003779 NADH dehydrogenase; Region: NADHdh; cl00469 536056003780 hydrogenase 4 subunit B; Validated; Region: PRK06521 536056003781 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 536056003782 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 536056003783 4Fe-4S binding domain; Region: Fer4; pfam00037 536056003784 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 536056003785 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 536056003786 catalytic triad [active] 536056003787 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 536056003788 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 536056003789 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 536056003790 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 536056003791 dihydrodipicolinate synthase; Region: dapA; TIGR00674 536056003792 dimer interface [polypeptide binding]; other site 536056003793 active site 536056003794 catalytic residue [active] 536056003795 lipoprotein; Provisional; Region: PRK11679 536056003796 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 536056003797 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 536056003798 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 536056003799 ATP binding site [chemical binding]; other site 536056003800 active site 536056003801 substrate binding site [chemical binding]; other site 536056003802 Predicted metalloprotease [General function prediction only]; Region: COG2321 536056003803 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 536056003804 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 536056003805 Helicase; Region: Helicase_RecD; pfam05127 536056003806 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 536056003807 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 536056003808 putative hydrolase; Provisional; Region: PRK11460 536056003809 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 536056003810 hypothetical protein; Provisional; Region: PRK13664 536056003811 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 536056003812 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 536056003813 metal binding site [ion binding]; metal-binding site 536056003814 dimer interface [polypeptide binding]; other site 536056003815 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 536056003816 ArsC family; Region: ArsC; pfam03960 536056003817 putative catalytic residues [active] 536056003818 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 536056003819 Protein export membrane protein; Region: SecD_SecF; cl14618 536056003820 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 536056003821 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 536056003822 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 536056003823 dimerization interface [polypeptide binding]; other site 536056003824 Histidine kinase; Region: HisKA_3; pfam07730 536056003825 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 536056003826 ATP binding site [chemical binding]; other site 536056003827 Mg2+ binding site [ion binding]; other site 536056003828 G-X-G motif; other site 536056003829 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 536056003830 4Fe-4S binding domain; Region: Fer4; pfam00037 536056003831 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 536056003832 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536056003833 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 536056003834 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 536056003835 dimer interface [polypeptide binding]; other site 536056003836 ADP-ribose binding site [chemical binding]; other site 536056003837 active site 536056003838 nudix motif; other site 536056003839 metal binding site [ion binding]; metal-binding site 536056003840 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 536056003841 transketolase; Reviewed; Region: PRK12753 536056003842 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 536056003843 TPP-binding site [chemical binding]; other site 536056003844 dimer interface [polypeptide binding]; other site 536056003845 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 536056003846 PYR/PP interface [polypeptide binding]; other site 536056003847 dimer interface [polypeptide binding]; other site 536056003848 TPP binding site [chemical binding]; other site 536056003849 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 536056003850 transaldolase-like protein; Provisional; Region: PTZ00411 536056003851 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 536056003852 active site 536056003853 dimer interface [polypeptide binding]; other site 536056003854 catalytic residue [active] 536056003855 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 536056003856 Malic enzyme, N-terminal domain; Region: malic; pfam00390 536056003857 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 536056003858 putative NAD(P) binding site [chemical binding]; other site 536056003859 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 536056003860 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 536056003861 putative hexamer interface [polypeptide binding]; other site 536056003862 putative hexagonal pore; other site 536056003863 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 536056003864 G1 box; other site 536056003865 GTP/Mg2+ binding site [chemical binding]; other site 536056003866 G2 box; other site 536056003867 Switch I region; other site 536056003868 G3 box; other site 536056003869 Switch II region; other site 536056003870 G4 box; other site 536056003871 G5 box; other site 536056003872 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 536056003873 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutQ; COG4766 536056003874 ethanolamine utilization cobalamin adenosyltransferase; Provisional; Region: PRK15020 536056003875 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 536056003876 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 536056003877 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 536056003878 Hexamer interface [polypeptide binding]; other site 536056003879 Putative hexagonal pore residue; other site 536056003880 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 536056003881 Hexamer/Pentamer interface [polypeptide binding]; other site 536056003882 central pore; other site 536056003883 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 536056003884 putative catalytic cysteine [active] 536056003885 Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]; Region: EutJ; COG4820 536056003886 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 536056003887 nucleotide binding site [chemical binding]; other site 536056003888 ethanol dehydrogenase EutG; Provisional; Region: PRK15454 536056003889 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 536056003890 active site 536056003891 metal binding site [ion binding]; metal-binding site 536056003892 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutH; COG3192 536056003893 reactivating factor for ethanolamine ammonia lyase; Provisional; Region: eutA; PRK10719 536056003894 Ethanolamine ammonia-lyase, large subunit [Amino acid transport and metabolism]; Region: EutB; COG4303 536056003895 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 536056003896 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 536056003897 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 536056003898 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 536056003899 putative hexamer interface [polypeptide binding]; other site 536056003900 putative hexagonal pore; other site 536056003901 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 536056003902 putative hexamer interface [polypeptide binding]; other site 536056003903 putative hexagonal pore; other site 536056003904 carboxysome structural protein EutK; Provisional; Region: PRK15466 536056003905 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 536056003906 Hexamer interface [polypeptide binding]; other site 536056003907 Hexagonal pore residue; other site 536056003908 transcriptional regulator EutR; Provisional; Region: PRK10130 536056003909 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056003910 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056003911 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 536056003912 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 536056003913 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 536056003914 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 536056003915 active site 536056003916 metal binding site [ion binding]; metal-binding site 536056003917 putative acetyltransferase; Provisional; Region: PRK03624 536056003918 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536056003919 Coenzyme A binding pocket [chemical binding]; other site 536056003920 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 536056003921 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 536056003922 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 536056003923 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 536056003924 putative periplasmic esterase; Provisional; Region: PRK03642 536056003925 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 536056003926 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 536056003927 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 536056003928 active site turn [active] 536056003929 phosphorylation site [posttranslational modification] 536056003930 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 536056003931 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 536056003932 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 536056003933 putative active site [active] 536056003934 transcriptional regulator MurR; Provisional; Region: PRK15482 536056003935 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 536056003936 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 536056003937 putative active site [active] 536056003938 short chain dehydrogenase; Provisional; Region: PRK08226 536056003939 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 536056003940 NAD binding site [chemical binding]; other site 536056003941 homotetramer interface [polypeptide binding]; other site 536056003942 homodimer interface [polypeptide binding]; other site 536056003943 active site 536056003944 thiosulfate transporter subunit; Provisional; Region: PRK10852 536056003945 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 536056003946 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 536056003947 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 536056003948 dimer interface [polypeptide binding]; other site 536056003949 conserved gate region; other site 536056003950 putative PBP binding loops; other site 536056003951 ABC-ATPase subunit interface; other site 536056003952 sulfate transport protein; Provisional; Region: cysT; CHL00187 536056003953 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 536056003954 dimer interface [polypeptide binding]; other site 536056003955 conserved gate region; other site 536056003956 putative PBP binding loops; other site 536056003957 ABC-ATPase subunit interface; other site 536056003958 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 536056003959 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 536056003960 Walker A/P-loop; other site 536056003961 ATP binding site [chemical binding]; other site 536056003962 Q-loop/lid; other site 536056003963 ABC transporter signature motif; other site 536056003964 Walker B; other site 536056003965 D-loop; other site 536056003966 H-loop/switch region; other site 536056003967 TOBE-like domain; Region: TOBE_3; pfam12857 536056003968 cysteine synthase B; Region: cysM; TIGR01138 536056003969 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 536056003970 dimer interface [polypeptide binding]; other site 536056003971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056003972 catalytic residue [active] 536056003973 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 536056003974 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4884 536056003975 hypothetical protein; Provisional; Region: PRK10318 536056003976 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 536056003977 dimer interface [polypeptide binding]; other site 536056003978 pyridoxamine kinase; Validated; Region: PRK05756 536056003979 pyridoxal binding site [chemical binding]; other site 536056003980 ATP binding site [chemical binding]; other site 536056003981 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 536056003982 HPr interaction site; other site 536056003983 glycerol kinase (GK) interaction site [polypeptide binding]; other site 536056003984 active site 536056003985 phosphorylation site [posttranslational modification] 536056003986 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 536056003987 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 536056003988 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 536056003989 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 536056003990 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 536056003991 dimerization domain swap beta strand [polypeptide binding]; other site 536056003992 regulatory protein interface [polypeptide binding]; other site 536056003993 active site 536056003994 regulatory phosphorylation site [posttranslational modification]; other site 536056003995 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 536056003996 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 536056003997 dimer interface [polypeptide binding]; other site 536056003998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056003999 catalytic residue [active] 536056004000 putative sulfate transport protein CysZ; Validated; Region: PRK04949 536056004001 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 536056004002 cell division protein ZipA; Provisional; Region: PRK03427 536056004003 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cd00231 536056004004 FtsZ protein binding site [polypeptide binding]; other site 536056004005 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 536056004006 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 536056004007 nucleotide binding pocket [chemical binding]; other site 536056004008 K-X-D-G motif; other site 536056004009 catalytic site [active] 536056004010 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 536056004011 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 536056004012 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 536056004013 Dimer interface [polypeptide binding]; other site 536056004014 BRCT sequence motif; other site 536056004015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 536056004016 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 536056004017 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 536056004018 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536056004019 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056004020 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 536056004021 putative dimerization interface [polypeptide binding]; other site 536056004022 hypothetical protein; Provisional; Region: PRK11528 536056004023 purine nucleoside phosphorylase; Provisional; Region: PRK08202 536056004024 nucleoside transporter; Region: 2A0110; TIGR00889 536056004025 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 536056004026 putative substrate translocation pore; other site 536056004027 XapX domain; Region: XapX; TIGR03510 536056004028 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 536056004029 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056004030 The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_XapR; cd08449 536056004031 putative dimerization interface [polypeptide binding]; other site 536056004032 putative substrate binding pocket [chemical binding]; other site 536056004033 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 536056004034 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 536056004035 active site 536056004036 HIGH motif; other site 536056004037 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 536056004038 active site 536056004039 KMSKS motif; other site 536056004040 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 536056004041 salt bridge; other site 536056004042 non-specific DNA binding site [nucleotide binding]; other site 536056004043 sequence-specific DNA binding site [nucleotide binding]; other site 536056004044 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 536056004045 MASE1; Region: MASE1; pfam05231 536056004046 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536056004047 diguanylate cyclase; Region: GGDEF; smart00267 536056004048 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 536056004049 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 536056004050 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 536056004051 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 536056004052 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 536056004053 Nucleoside recognition; Region: Gate; pfam07670 536056004054 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 536056004055 manganese transport protein MntH; Reviewed; Region: PRK00701 536056004056 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 536056004057 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 536056004058 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 536056004059 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 536056004060 Cl- selectivity filter; other site 536056004061 Cl- binding residues [ion binding]; other site 536056004062 pore gating glutamate residue; other site 536056004063 dimer interface [polypeptide binding]; other site 536056004064 glucokinase, proteobacterial type; Region: glk; TIGR00749 536056004065 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 536056004066 nucleotide binding site [chemical binding]; other site 536056004067 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 536056004068 active site 536056004069 P-loop; other site 536056004070 phosphorylation site [posttranslational modification] 536056004071 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 536056004072 aminopeptidase; Provisional; Region: PRK09795 536056004073 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 536056004074 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 536056004075 active site 536056004076 exoaminopeptidase; Provisional; Region: PRK09961 536056004077 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 536056004078 oligomer interface [polypeptide binding]; other site 536056004079 active site 536056004080 metal binding site [ion binding]; metal-binding site 536056004081 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 536056004082 dimerization domain swap beta strand [polypeptide binding]; other site 536056004083 regulatory protein interface [polypeptide binding]; other site 536056004084 active site 536056004085 regulatory phosphorylation site [posttranslational modification]; other site 536056004086 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 536056004087 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 536056004088 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 536056004089 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 536056004090 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 536056004091 active site 536056004092 phosphorylation site [posttranslational modification] 536056004093 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536056004094 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056004095 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 536056004096 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 536056004097 active site 536056004098 phosphorylation site [posttranslational modification] 536056004099 intermolecular recognition site; other site 536056004100 dimerization interface [polypeptide binding]; other site 536056004101 LytTr DNA-binding domain; Region: LytTR; pfam04397 536056004102 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 536056004103 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 536056004104 GAF domain; Region: GAF; pfam01590 536056004105 Histidine kinase; Region: His_kinase; pfam06580 536056004106 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 536056004107 ATP binding site [chemical binding]; other site 536056004108 Mg2+ binding site [ion binding]; other site 536056004109 G-X-G motif; other site 536056004110 aminotransferase; Validated; Region: PRK08175 536056004111 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 536056004112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056004113 homodimer interface [polypeptide binding]; other site 536056004114 catalytic residue [active] 536056004115 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 536056004116 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 536056004117 putative acyl-acceptor binding pocket; other site 536056004118 Protein of unknown function (DUF2545); Region: DUF2545; pfam10810 536056004119 hypothetical protein; Provisional; Region: PRK10316 536056004120 YfdX protein; Region: YfdX; pfam10938 536056004121 formyl-coenzyme A transferase; Provisional; Region: PRK05398 536056004122 CoA-transferase family III; Region: CoA_transf_3; pfam02515 536056004123 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 536056004124 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 536056004125 PYR/PP interface [polypeptide binding]; other site 536056004126 dimer interface [polypeptide binding]; other site 536056004127 TPP binding site [chemical binding]; other site 536056004128 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 536056004129 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 536056004130 TPP-binding site; other site 536056004131 dimer interface [polypeptide binding]; other site 536056004132 putative transporter YfdV; Provisional; Region: PRK09903 536056004133 putative CoA-transferase; Provisional; Region: PRK11430 536056004134 CoA-transferase family III; Region: CoA_transf_3; pfam02515 536056004135 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 536056004136 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 536056004137 substrate binding pocket [chemical binding]; other site 536056004138 membrane-bound complex binding site; other site 536056004139 hinge residues; other site 536056004140 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 536056004141 substrate binding pocket [chemical binding]; other site 536056004142 membrane-bound complex binding site; other site 536056004143 hinge residues; other site 536056004144 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 536056004145 dimer interface [polypeptide binding]; other site 536056004146 phosphorylation site [posttranslational modification] 536056004147 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 536056004148 ATP binding site [chemical binding]; other site 536056004149 Mg2+ binding site [ion binding]; other site 536056004150 G-X-G motif; other site 536056004151 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 536056004152 active site 536056004153 phosphorylation site [posttranslational modification] 536056004154 intermolecular recognition site; other site 536056004155 dimerization interface [polypeptide binding]; other site 536056004156 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 536056004157 putative binding surface; other site 536056004158 active site 536056004159 DNA-binding transcriptional activator EvgA; Provisional; Region: PRK09958 536056004160 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 536056004161 active site 536056004162 phosphorylation site [posttranslational modification] 536056004163 intermolecular recognition site; other site 536056004164 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 536056004165 DNA binding residues [nucleotide binding] 536056004166 dimerization interface [polypeptide binding]; other site 536056004167 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 536056004168 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536056004169 HlyD family secretion protein; Region: HlyD_3; pfam13437 536056004170 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 536056004171 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 536056004172 putative substrate translocation pore; other site 536056004173 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 536056004174 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 536056004175 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 536056004176 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536056004177 catalytic residue [active] 536056004178 permease DsdX; Provisional; Region: PRK09921 536056004179 gluconate transporter; Region: gntP; TIGR00791 536056004180 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 536056004181 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056004182 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 536056004183 dimerization interface [polypeptide binding]; other site 536056004184 substrate binding pocket [chemical binding]; other site 536056004185 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 536056004186 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 536056004187 Uncharacterized conserved protein [Function unknown]; Region: COG5532 536056004188 PerC transcriptional activator; Region: PerC; pfam06069 536056004189 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 536056004190 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 536056004191 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 536056004192 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 536056004193 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 536056004194 Ligand binding site; other site 536056004195 Putative Catalytic site; other site 536056004196 DXD motif; other site 536056004197 Predicted membrane protein [Function unknown]; Region: COG2246 536056004198 integrase; Provisional; Region: PRK09692 536056004199 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 536056004200 active site 536056004201 Int/Topo IB signature motif; other site 536056004202 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 536056004203 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 536056004204 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 536056004205 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 536056004206 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 536056004207 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 536056004208 dimer interface [polypeptide binding]; other site 536056004209 active site 536056004210 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 536056004211 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 536056004212 substrate binding site [chemical binding]; other site 536056004213 oxyanion hole (OAH) forming residues; other site 536056004214 trimer interface [polypeptide binding]; other site 536056004215 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 536056004216 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 536056004217 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 536056004218 catalytic core [active] 536056004219 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 536056004220 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 536056004221 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 536056004222 Fimbrial protein; Region: Fimbrial; cl01416 536056004223 Fimbrial protein; Region: Fimbrial; cl01416 536056004224 Fimbrial protein; Region: Fimbrial; cl01416 536056004225 Protein of unknown function (DUF2544); Region: DUF2544; pfam11245 536056004226 hypothetical protein; Provisional; Region: PRK04946 536056004227 Smr domain; Region: Smr; pfam01713 536056004228 HemK family putative methylases; Region: hemK_fam; TIGR00536 536056004229 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 536056004230 S-adenosylmethionine binding site [chemical binding]; other site 536056004231 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 536056004232 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 536056004233 Tetramer interface [polypeptide binding]; other site 536056004234 active site 536056004235 FMN-binding site [chemical binding]; other site 536056004236 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 536056004237 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 536056004238 hypothetical protein; Provisional; Region: PRK10621 536056004239 Predicted permeases [General function prediction only]; Region: COG0730 536056004240 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 536056004241 YfcL protein; Region: YfcL; pfam08891 536056004242 Uncharacterized conserved protein [Function unknown]; Region: COG4121 536056004243 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 536056004244 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 536056004245 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 536056004246 dimer interface [polypeptide binding]; other site 536056004247 active site 536056004248 putative transporter; Provisional; Region: PRK12382 536056004249 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 536056004250 putative substrate translocation pore; other site 536056004251 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 536056004252 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 536056004253 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 536056004254 ligand binding site [chemical binding]; other site 536056004255 NAD binding site [chemical binding]; other site 536056004256 catalytic site [active] 536056004257 homodimer interface [polypeptide binding]; other site 536056004258 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 536056004259 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 536056004260 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 536056004261 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 536056004262 dimerization interface 3.5A [polypeptide binding]; other site 536056004263 active site 536056004264 hypothetical protein; Provisional; Region: PRK10847 536056004265 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 536056004266 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 536056004267 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 536056004268 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 536056004269 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536056004270 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 536056004271 cell division protein DedD; Provisional; Region: PRK11633 536056004272 Sporulation related domain; Region: SPOR; pfam05036 536056004273 colicin V production protein; Provisional; Region: PRK10845 536056004274 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 536056004275 amidophosphoribosyltransferase; Provisional; Region: PRK09246 536056004276 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 536056004277 active site 536056004278 tetramer interface [polypeptide binding]; other site 536056004279 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536056004280 active site 536056004281 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 536056004282 Flavoprotein; Region: Flavoprotein; pfam02441 536056004283 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 536056004284 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 536056004285 substrate binding pocket [chemical binding]; other site 536056004286 membrane-bound complex binding site; other site 536056004287 hinge residues; other site 536056004288 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 536056004289 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 536056004290 substrate binding pocket [chemical binding]; other site 536056004291 membrane-bound complex binding site; other site 536056004292 hinge residues; other site 536056004293 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536056004294 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 536056004295 dimer interface [polypeptide binding]; other site 536056004296 conserved gate region; other site 536056004297 putative PBP binding loops; other site 536056004298 ABC-ATPase subunit interface; other site 536056004299 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 536056004300 dimer interface [polypeptide binding]; other site 536056004301 conserved gate region; other site 536056004302 putative PBP binding loops; other site 536056004303 ABC-ATPase subunit interface; other site 536056004304 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 536056004305 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 536056004306 Walker A/P-loop; other site 536056004307 ATP binding site [chemical binding]; other site 536056004308 Q-loop/lid; other site 536056004309 ABC transporter signature motif; other site 536056004310 Walker B; other site 536056004311 D-loop; other site 536056004312 H-loop/switch region; other site 536056004313 putative transposase; Provisional; Region: PRK09857 536056004314 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 536056004315 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 536056004316 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 536056004317 putative NAD(P) binding site [chemical binding]; other site 536056004318 putative active site [active] 536056004319 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 536056004320 homooctamer interface [polypeptide binding]; other site 536056004321 active site 536056004322 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 536056004323 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 536056004324 C-terminal domain interface [polypeptide binding]; other site 536056004325 GSH binding site (G-site) [chemical binding]; other site 536056004326 dimer interface [polypeptide binding]; other site 536056004327 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 536056004328 N-terminal domain interface [polypeptide binding]; other site 536056004329 putative dimer interface [polypeptide binding]; other site 536056004330 active site 536056004331 glutathione S-transferase; Provisional; Region: PRK15113 536056004332 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 536056004333 C-terminal domain interface [polypeptide binding]; other site 536056004334 GSH binding site (G-site) [chemical binding]; other site 536056004335 dimer interface [polypeptide binding]; other site 536056004336 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 536056004337 N-terminal domain interface [polypeptide binding]; other site 536056004338 putative dimer interface [polypeptide binding]; other site 536056004339 putative substrate binding pocket (H-site) [chemical binding]; other site 536056004340 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 536056004341 active site 536056004342 metal binding site [ion binding]; metal-binding site 536056004343 homotetramer interface [polypeptide binding]; other site 536056004344 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 536056004345 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_38; cd04697 536056004346 nudix motif; other site 536056004347 hypothetical protein; Provisional; Region: PRK11588 536056004348 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 536056004349 phosphate acetyltransferase; Reviewed; Region: PRK05632 536056004350 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 536056004351 DRTGG domain; Region: DRTGG; pfam07085 536056004352 phosphate acetyltransferase; Region: pta; TIGR00651 536056004353 propionate/acetate kinase; Provisional; Region: PRK12379 536056004354 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 536056004355 hypothetical protein; Provisional; Region: PRK01816 536056004356 hypothetical protein; Validated; Region: PRK05445 536056004357 putative phosphatase; Provisional; Region: PRK11587 536056004358 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 536056004359 motif II; other site 536056004360 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 536056004361 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 536056004362 TrkA-C domain; Region: TrkA_C; pfam02080 536056004363 TrkA-C domain; Region: TrkA_C; pfam02080 536056004364 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 536056004365 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536056004366 Zn2+ binding site [ion binding]; other site 536056004367 Mg2+ binding site [ion binding]; other site 536056004368 aminotransferase AlaT; Validated; Region: PRK09265 536056004369 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 536056004370 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056004371 homodimer interface [polypeptide binding]; other site 536056004372 catalytic residue [active] 536056004373 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 536056004374 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056004375 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 536056004376 putative dimerization interface [polypeptide binding]; other site 536056004377 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 536056004378 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 536056004379 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 536056004380 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 536056004381 NADH dehydrogenase subunit D; Validated; Region: PRK06075 536056004382 NADH dehydrogenase subunit E; Validated; Region: PRK07539 536056004383 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 536056004384 putative dimer interface [polypeptide binding]; other site 536056004385 [2Fe-2S] cluster binding site [ion binding]; other site 536056004386 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 536056004387 SLBB domain; Region: SLBB; pfam10531 536056004388 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 536056004389 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 536056004390 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 536056004391 catalytic loop [active] 536056004392 iron binding site [ion binding]; other site 536056004393 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 536056004394 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 536056004395 [4Fe-4S] binding site [ion binding]; other site 536056004396 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 536056004397 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 536056004398 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 536056004399 4Fe-4S binding domain; Region: Fer4; pfam00037 536056004400 4Fe-4S binding domain; Region: Fer4; pfam00037 536056004401 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 536056004402 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 536056004403 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 536056004404 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 536056004405 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 536056004406 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 536056004407 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 536056004408 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 536056004409 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 536056004410 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 536056004411 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 536056004412 M28 Zn-Peptidases; Region: M28_like_1; cd05640 536056004413 Peptidase family M28; Region: Peptidase_M28; pfam04389 536056004414 metal binding site [ion binding]; metal-binding site 536056004415 von Willebrand factor; Region: vWF_A; pfam12450 536056004416 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 536056004417 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 536056004418 metal ion-dependent adhesion site (MIDAS); other site 536056004419 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 536056004420 deubiquitinase; Provisional; Region: PRK11836 536056004421 ribonuclease BN; Region: true_RNase_BN; TIGR02649 536056004422 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536056004423 Coenzyme A binding pocket [chemical binding]; other site 536056004424 hypothetical protein; Provisional; Region: PRK10404 536056004425 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 536056004426 isochorismate synthases; Region: isochor_syn; TIGR00543 536056004427 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 536056004428 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 536056004429 dimer interface [polypeptide binding]; other site 536056004430 tetramer interface [polypeptide binding]; other site 536056004431 PYR/PP interface [polypeptide binding]; other site 536056004432 TPP binding site [chemical binding]; other site 536056004433 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 536056004434 TPP-binding site; other site 536056004435 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 536056004436 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...; Region: Lipase; cl14883 536056004437 nucleophilic elbow; other site 536056004438 catalytic triad; other site 536056004439 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 536056004440 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 536056004441 substrate binding site [chemical binding]; other site 536056004442 oxyanion hole (OAH) forming residues; other site 536056004443 trimer interface [polypeptide binding]; other site 536056004444 O-succinylbenzoate synthase; Provisional; Region: PRK05105 536056004445 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 536056004446 active site 536056004447 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 536056004448 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 536056004449 acyl-activating enzyme (AAE) consensus motif; other site 536056004450 putative AMP binding site [chemical binding]; other site 536056004451 putative active site [active] 536056004452 putative CoA binding site [chemical binding]; other site 536056004453 signal transduction protein PmrD; Provisional; Region: PRK15450 536056004454 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 536056004455 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 536056004456 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 536056004457 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 536056004458 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 536056004459 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 536056004460 putative active site [active] 536056004461 putative catalytic site [active] 536056004462 putative Zn binding site [ion binding]; other site 536056004463 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 536056004464 ArnA, N-terminal formyltransferase domain; Region: FMT_core_ArnA_N; cd08644 536056004465 substrate binding site [chemical binding]; other site 536056004466 cosubstrate binding site; other site 536056004467 catalytic site [active] 536056004468 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 536056004469 active site 536056004470 hexamer interface [polypeptide binding]; other site 536056004471 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 536056004472 NAD binding site [chemical binding]; other site 536056004473 substrate binding site [chemical binding]; other site 536056004474 active site 536056004475 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 536056004476 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 536056004477 Ligand binding site; other site 536056004478 Putative Catalytic site; other site 536056004479 DXD motif; other site 536056004480 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 536056004481 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 536056004482 inhibitor-cofactor binding pocket; inhibition site 536056004483 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056004484 catalytic residue [active] 536056004485 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 536056004486 catalytic core [active] 536056004487 nucleoside triphosphatase NudI; Provisional; Region: PRK15472 536056004488 YfaZ precursor; Region: YfaZ; pfam07437 536056004489 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 536056004490 hypothetical protein; Provisional; Region: PRK03673 536056004491 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 536056004492 putative MPT binding site; other site 536056004493 Competence-damaged protein; Region: CinA; cl00666 536056004494 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 536056004495 Transcriptional regulator [Transcription]; Region: IclR; COG1414 536056004496 Bacterial transcriptional regulator; Region: IclR; pfam01614 536056004497 L-rhamnonate dehydratase; Provisional; Region: PRK15440 536056004498 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. 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_2; cd03327 536056004499 putative active site pocket [active] 536056004500 putative metal binding site [ion binding]; other site 536056004501 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 536056004502 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 536056004503 putative substrate translocation pore; other site 536056004504 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional; Region: PRK10128 536056004505 hypothetical protein; Provisional; Region: PRK09956 536056004506 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 536056004507 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 536056004508 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 536056004509 Cysteine-rich domain; Region: CCG; pfam02754 536056004510 Cysteine-rich domain; Region: CCG; pfam02754 536056004511 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; COG3075 536056004512 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 536056004513 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 536056004514 hydroxyglutarate oxidase; Provisional; Region: PRK11728 536056004515 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 536056004516 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 536056004517 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 536056004518 putative substrate translocation pore; other site 536056004519 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 536056004520 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 536056004521 active site 536056004522 catalytic site [active] 536056004523 metal binding site [ion binding]; metal-binding site 536056004524 hypothetical protein; Provisional; Region: PRK09729 536056004525 hypothetical protein; Provisional; Region: PRK09902 536056004526 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 536056004527 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 536056004528 catalytic loop [active] 536056004529 iron binding site [ion binding]; other site 536056004530 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 536056004531 dimer interface [polypeptide binding]; other site 536056004532 putative radical transfer pathway; other site 536056004533 diiron center [ion binding]; other site 536056004534 tyrosyl radical; other site 536056004535 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 536056004536 ATP cone domain; Region: ATP-cone; pfam03477 536056004537 Class I ribonucleotide reductase; Region: RNR_I; cd01679 536056004538 active site 536056004539 dimer interface [polypeptide binding]; other site 536056004540 catalytic residues [active] 536056004541 effector binding site; other site 536056004542 R2 peptide binding site; other site 536056004543 adhesin; Provisional; Region: PRK09752 536056004544 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 536056004545 Autotransporter beta-domain; Region: Autotransporter; pfam03797 536056004546 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 536056004547 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 536056004548 S-adenosylmethionine binding site [chemical binding]; other site 536056004549 DNA gyrase subunit A; Validated; Region: PRK05560 536056004550 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 536056004551 CAP-like domain; other site 536056004552 active site 536056004553 primary dimer interface [polypeptide binding]; other site 536056004554 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536056004555 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536056004556 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536056004557 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536056004558 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536056004559 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 536056004560 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4685 536056004561 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3234 536056004562 Predicted secreted protein [Function unknown]; Region: COG5445 536056004563 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 536056004564 Predicted secreted protein [Function unknown]; Region: COG5445 536056004565 Stage II sporulation protein; Region: SpoIID; pfam08486 536056004566 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 536056004567 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 536056004568 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 536056004569 putative acyltransferase; Provisional; Region: PRK05790 536056004570 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 536056004571 dimer interface [polypeptide binding]; other site 536056004572 active site 536056004573 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 536056004574 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 536056004575 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional; Region: PRK09920 536056004576 acetoacetate metabolism regulatory protein AtoC; Provisional; Region: PRK11361 536056004577 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 536056004578 active site 536056004579 phosphorylation site [posttranslational modification] 536056004580 intermolecular recognition site; other site 536056004581 dimerization interface [polypeptide binding]; other site 536056004582 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 536056004583 Walker A motif; other site 536056004584 ATP binding site [chemical binding]; other site 536056004585 Walker B motif; other site 536056004586 arginine finger; other site 536056004587 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536056004588 sensory histidine kinase AtoS; Provisional; Region: PRK11360 536056004589 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 536056004590 putative active site [active] 536056004591 heme pocket [chemical binding]; other site 536056004592 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 536056004593 dimer interface [polypeptide binding]; other site 536056004594 phosphorylation site [posttranslational modification] 536056004595 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 536056004596 ATP binding site [chemical binding]; other site 536056004597 Mg2+ binding site [ion binding]; other site 536056004598 G-X-G motif; other site 536056004599 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 536056004600 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 536056004601 dimer interface [polypeptide binding]; other site 536056004602 phosphorylation site [posttranslational modification] 536056004603 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 536056004604 ATP binding site [chemical binding]; other site 536056004605 Mg2+ binding site [ion binding]; other site 536056004606 G-X-G motif; other site 536056004607 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 536056004608 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 536056004609 active site 536056004610 phosphorylation site [posttranslational modification] 536056004611 intermolecular recognition site; other site 536056004612 dimerization interface [polypeptide binding]; other site 536056004613 transcriptional regulator RcsB; Provisional; Region: PRK10840 536056004614 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 536056004615 active site 536056004616 phosphorylation site [posttranslational modification] 536056004617 intermolecular recognition site; other site 536056004618 dimerization interface [polypeptide binding]; other site 536056004619 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 536056004620 DNA binding residues [nucleotide binding] 536056004621 dimerization interface [polypeptide binding]; other site 536056004622 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 536056004623 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 536056004624 ATP binding site [chemical binding]; other site 536056004625 G-X-G motif; other site 536056004626 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 536056004627 putative binding surface; other site 536056004628 active site 536056004629 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 536056004630 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 536056004631 trimer interface [polypeptide binding]; other site 536056004632 eyelet of channel; other site 536056004633 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 536056004634 ApbE family; Region: ApbE; pfam02424 536056004635 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 536056004636 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 536056004637 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056004638 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056004639 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 536056004640 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 536056004641 DNA binding site [nucleotide binding] 536056004642 active site 536056004643 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 536056004644 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 536056004645 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 536056004646 Walker A/P-loop; other site 536056004647 ATP binding site [chemical binding]; other site 536056004648 Q-loop/lid; other site 536056004649 ABC transporter signature motif; other site 536056004650 Walker B; other site 536056004651 D-loop; other site 536056004652 H-loop/switch region; other site 536056004653 malate:quinone oxidoreductase; Validated; Region: PRK05257 536056004654 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 536056004655 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cd00242 536056004656 secondary substrate binding site; other site 536056004657 primary substrate binding site; other site 536056004658 inhibition loop; other site 536056004659 dimerization interface [polypeptide binding]; other site 536056004660 ferredoxin-type protein; Provisional; Region: PRK10194 536056004661 assembly protein for periplasmic nitrate reductase; Provisional; Region: PRK10553 536056004662 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 536056004663 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 536056004664 [4Fe-4S] binding site [ion binding]; other site 536056004665 molybdopterin cofactor binding site; other site 536056004666 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 536056004667 molybdopterin cofactor binding site; other site 536056004668 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 536056004669 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 536056004670 4Fe-4S binding domain; Region: Fer4_5; pfam12801 536056004671 4Fe-4S binding domain; Region: Fer4_6; pfam12837 536056004672 nitrate reductase cytochrome C550 subunit; Provisional; Region: napB; PRK11586 536056004673 cytochrome c-type protein NapC; Provisional; Region: PRK10617 536056004674 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 536056004675 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 536056004676 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 536056004677 Walker A/P-loop; other site 536056004678 ATP binding site [chemical binding]; other site 536056004679 Q-loop/lid; other site 536056004680 ABC transporter signature motif; other site 536056004681 Walker B; other site 536056004682 D-loop; other site 536056004683 H-loop/switch region; other site 536056004684 heme exporter protein CcmB; Region: ccmB; TIGR01190 536056004685 heme exporter protein CcmC; Region: ccmC; TIGR01191 536056004686 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 536056004687 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 536056004688 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 536056004689 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 536056004690 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 536056004691 catalytic residues [active] 536056004692 central insert; other site 536056004693 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 536056004694 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 536056004695 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 536056004696 binding surface 536056004697 TPR motif; other site 536056004698 transcriptional regulator NarP; Provisional; Region: PRK10403 536056004699 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 536056004700 active site 536056004701 phosphorylation site [posttranslational modification] 536056004702 intermolecular recognition site; other site 536056004703 dimerization interface [polypeptide binding]; other site 536056004704 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 536056004705 DNA binding residues [nucleotide binding] 536056004706 dimerization interface [polypeptide binding]; other site 536056004707 Transposase domain (DUF772); Region: DUF772; pfam05598 536056004708 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 536056004709 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 536056004710 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 536056004711 hypothetical protein; Provisional; Region: PRK09945 536056004712 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 536056004713 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 536056004714 Autotransporter beta-domain; Region: Autotransporter; pfam03797 536056004715 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 536056004716 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 536056004717 Sulfatase; Region: Sulfatase; pfam00884 536056004718 hypothetical protein; Provisional; Region: PRK13689 536056004719 Nucleoid-associated protein [General function prediction only]; Region: COG3081 536056004720 nucleoid-associated protein NdpA; Validated; Region: PRK00378 536056004721 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 536056004722 5S rRNA interface [nucleotide binding]; other site 536056004723 CTC domain interface [polypeptide binding]; other site 536056004724 L16 interface [polypeptide binding]; other site 536056004725 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 536056004726 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 536056004727 ATP binding site [chemical binding]; other site 536056004728 putative Mg++ binding site [ion binding]; other site 536056004729 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 536056004730 nucleotide binding region [chemical binding]; other site 536056004731 ATP-binding site [chemical binding]; other site 536056004732 Ribosomal L40e family; Region: Ribosomal_L40e; cl00671 536056004733 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 536056004734 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 536056004735 RNA binding surface [nucleotide binding]; other site 536056004736 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 536056004737 active site 536056004738 uracil binding [chemical binding]; other site 536056004739 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 536056004740 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 536056004741 putative substrate translocation pore; other site 536056004742 hypothetical protein; Provisional; Region: PRK11835 536056004743 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 536056004744 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536056004745 Walker A/P-loop; other site 536056004746 ATP binding site [chemical binding]; other site 536056004747 Q-loop/lid; other site 536056004748 ABC transporter signature motif; other site 536056004749 Walker B; other site 536056004750 D-loop; other site 536056004751 H-loop/switch region; other site 536056004752 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 536056004753 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536056004754 Walker A/P-loop; other site 536056004755 ATP binding site [chemical binding]; other site 536056004756 Q-loop/lid; other site 536056004757 ABC transporter signature motif; other site 536056004758 Walker B; other site 536056004759 D-loop; other site 536056004760 H-loop/switch region; other site 536056004761 microcin C ABC transporter permease; Provisional; Region: PRK15021 536056004762 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 536056004763 dimer interface [polypeptide binding]; other site 536056004764 conserved gate region; other site 536056004765 ABC-ATPase subunit interface; other site 536056004766 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 536056004767 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 536056004768 dimer interface [polypeptide binding]; other site 536056004769 conserved gate region; other site 536056004770 putative PBP binding loops; other site 536056004771 ABC-ATPase subunit interface; other site 536056004772 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 536056004773 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 536056004774 phage resistance protein; Provisional; Region: PRK10551 536056004775 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 536056004776 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 536056004777 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 536056004778 NlpC/P60 family; Region: NLPC_P60; pfam00877 536056004779 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 536056004780 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 536056004781 active site 536056004782 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 536056004783 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 536056004784 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 536056004785 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 536056004786 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 536056004787 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 536056004788 elongation factor P; Provisional; Region: PRK04542 536056004789 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 536056004790 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 536056004791 RNA binding site [nucleotide binding]; other site 536056004792 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 536056004793 RNA binding site [nucleotide binding]; other site 536056004794 Flagellin N-methylase; Region: FliB; pfam03692 536056004795 sugar efflux transporter B; Provisional; Region: PRK15011 536056004796 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 536056004797 putative substrate translocation pore; other site 536056004798 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 536056004799 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 536056004800 active site 536056004801 phosphorylation site [posttranslational modification] 536056004802 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 536056004803 dimerization domain swap beta strand [polypeptide binding]; other site 536056004804 regulatory protein interface [polypeptide binding]; other site 536056004805 active site 536056004806 regulatory phosphorylation site [posttranslational modification]; other site 536056004807 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 536056004808 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 536056004809 putative substrate binding site [chemical binding]; other site 536056004810 putative ATP binding site [chemical binding]; other site 536056004811 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 536056004812 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 536056004813 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 536056004814 active site 536056004815 P-loop; other site 536056004816 phosphorylation site [posttranslational modification] 536056004817 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 536056004818 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 536056004819 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 536056004820 substrate binding site [chemical binding]; other site 536056004821 ATP binding site [chemical binding]; other site 536056004822 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 536056004823 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 536056004824 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 536056004825 Nucleoside recognition; Region: Gate; pfam07670 536056004826 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 536056004827 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 536056004828 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 536056004829 ligand binding site [chemical binding]; other site 536056004830 flexible hinge region; other site 536056004831 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 536056004832 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 536056004833 active site 536056004834 tetramer interface [polypeptide binding]; other site 536056004835 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 536056004836 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 536056004837 Nucleoside recognition; Region: Gate; pfam07670 536056004838 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 536056004839 putative kinase; Provisional; Region: PRK09954 536056004840 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 536056004841 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 536056004842 substrate binding site [chemical binding]; other site 536056004843 ATP binding site [chemical binding]; other site 536056004844 endonuclease IV; Provisional; Region: PRK01060 536056004845 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 536056004846 AP (apurinic/apyrimidinic) site pocket; other site 536056004847 DNA interaction; other site 536056004848 Metal-binding active site; metal-binding site 536056004849 conserved hypothetical integral membrane protein; Region: TIGR00698 536056004850 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 536056004851 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056004852 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 536056004853 putative dimerization interface [polypeptide binding]; other site 536056004854 lysine transporter; Provisional; Region: PRK10836 536056004855 catecholate siderophore receptor CirA; Provisional; Region: PRK10064 536056004856 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 536056004857 N-terminal plug; other site 536056004858 ligand-binding site [chemical binding]; other site 536056004859 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 536056004860 S-formylglutathione hydrolase; Region: PLN02442 536056004861 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 536056004862 homodecamer interface [polypeptide binding]; other site 536056004863 GTP cyclohydrolase I; Provisional; Region: PLN03044 536056004864 active site 536056004865 putative catalytic site residues [active] 536056004866 zinc binding site [ion binding]; other site 536056004867 GTP-CH-I/GFRP interaction surface; other site 536056004868 Predicted membrane protein [Function unknown]; Region: COG2311 536056004869 hypothetical protein; Provisional; Region: PRK10835 536056004870 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 536056004871 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536056004872 DNA binding site [nucleotide binding] 536056004873 domain linker motif; other site 536056004874 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 536056004875 dimerization interface (closed form) [polypeptide binding]; other site 536056004876 ligand binding site [chemical binding]; other site 536056004877 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 536056004878 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 536056004879 ligand binding site [chemical binding]; other site 536056004880 calcium binding site [ion binding]; other site 536056004881 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 536056004882 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 536056004883 Walker A/P-loop; other site 536056004884 ATP binding site [chemical binding]; other site 536056004885 Q-loop/lid; other site 536056004886 ABC transporter signature motif; other site 536056004887 Walker B; other site 536056004888 D-loop; other site 536056004889 H-loop/switch region; other site 536056004890 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 536056004891 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536056004892 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 536056004893 TM-ABC transporter signature motif; other site 536056004894 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 536056004895 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 536056004896 homodimer interface [polypeptide binding]; other site 536056004897 active site 536056004898 FMN binding site [chemical binding]; other site 536056004899 substrate binding site [chemical binding]; other site 536056004900 4Fe-4S binding domain; Region: Fer4; pfam00037 536056004901 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 536056004902 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 536056004903 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536056004904 Protein of unknown function (DUF2542); Region: DUF2542; pfam10808 536056004905 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 536056004906 putative active site [active] 536056004907 cytidine deaminase; Provisional; Region: PRK09027 536056004908 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 536056004909 active site 536056004910 catalytic motif [active] 536056004911 Zn binding site [ion binding]; other site 536056004912 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 536056004913 active site 536056004914 catalytic motif [active] 536056004915 Zn binding site [ion binding]; other site 536056004916 hypothetical protein; Provisional; Region: PRK10711 536056004917 hypothetical protein; Provisional; Region: PRK01821 536056004918 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 536056004919 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 536056004920 FMN binding site [chemical binding]; other site 536056004921 active site 536056004922 catalytic residues [active] 536056004923 substrate binding site [chemical binding]; other site 536056004924 oxidoreductase; Provisional; Region: PRK12743 536056004925 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536056004926 NAD(P) binding site [chemical binding]; other site 536056004927 active site 536056004928 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 536056004929 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 536056004930 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 536056004931 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 536056004932 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 536056004933 D-lactate dehydrogenase; Provisional; Region: PRK11183 536056004934 FAD binding domain; Region: FAD_binding_4; pfam01565 536056004935 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 536056004936 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 536056004937 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 536056004938 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 536056004939 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 536056004940 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 536056004941 dimer interface [polypeptide binding]; other site 536056004942 conserved gate region; other site 536056004943 ABC-ATPase subunit interface; other site 536056004944 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 536056004945 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 536056004946 Walker A/P-loop; other site 536056004947 ATP binding site [chemical binding]; other site 536056004948 Q-loop/lid; other site 536056004949 ABC transporter signature motif; other site 536056004950 Walker B; other site 536056004951 D-loop; other site 536056004952 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 536056004953 H-loop/switch region; other site 536056004954 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 536056004955 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 536056004956 dimer interface [polypeptide binding]; other site 536056004957 conserved gate region; other site 536056004958 putative PBP binding loops; other site 536056004959 ABC-ATPase subunit interface; other site 536056004960 hypothetical protein; Provisional; Region: PRK13681 536056004961 transcriptional regulator MirA; Provisional; Region: PRK15043 536056004962 Helix-Turn-Helix DNA binding domain of MlrA-like transcription regulators; Region: HTH_MlrA-like; cd04763 536056004963 DNA binding residues [nucleotide binding] 536056004964 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 536056004965 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 536056004966 GAF domain; Region: GAF; pfam01590 536056004967 Histidine kinase; Region: His_kinase; pfam06580 536056004968 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 536056004969 ATP binding site [chemical binding]; other site 536056004970 Mg2+ binding site [ion binding]; other site 536056004971 G-X-G motif; other site 536056004972 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 536056004973 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 536056004974 active site 536056004975 phosphorylation site [posttranslational modification] 536056004976 intermolecular recognition site; other site 536056004977 dimerization interface [polypeptide binding]; other site 536056004978 LytTr DNA-binding domain; Region: LytTR; pfam04397 536056004979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 536056004980 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 536056004981 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 536056004982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4808 536056004983 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 536056004984 VWA YIEM type: 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_YIEM_type; cd01462 536056004985 metal ion-dependent adhesion site (MIDAS); other site 536056004986 MoxR-like ATPases [General function prediction only]; Region: COG0714 536056004987 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 536056004988 Walker A motif; other site 536056004989 ATP binding site [chemical binding]; other site 536056004990 Walker B motif; other site 536056004991 arginine finger; other site 536056004992 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 536056004993 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 536056004994 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 536056004995 active site 536056004996 HIGH motif; other site 536056004997 KMSKS motif; other site 536056004998 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 536056004999 tRNA binding surface [nucleotide binding]; other site 536056005000 anticodon binding site; other site 536056005001 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 536056005002 dimer interface [polypeptide binding]; other site 536056005003 putative tRNA-binding site [nucleotide binding]; other site 536056005004 antiporter inner membrane protein; Provisional; Region: PRK11670 536056005005 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 536056005006 Walker A motif; other site 536056005007 Protein of unknown function (DUF2574); Region: DUF2574; pfam10836 536056005008 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 536056005009 putative fimbrial assembly chaperone protein StcB; Provisional; Region: PRK15253 536056005010 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 536056005011 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 536056005012 fimbrial outer membrane usher protein; Provisional; Region: PRK15217 536056005013 PapC N-terminal domain; Region: PapC_N; pfam13954 536056005014 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 536056005015 PapC C-terminal domain; Region: PapC_C; pfam13953 536056005016 putative fimbrial-like adhesin protein StcD; Provisional; Region: PRK15252 536056005017 putative fimbrial biosynthesis regulatory protein; Provisional; Region: PRK15216 536056005018 Predicted integral membrane protein [Function unknown]; Region: COG5455 536056005019 nickel/cobalt efflux protein RcnA; Provisional; Region: PRK10019 536056005020 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 536056005021 putative metal binding site [ion binding]; other site 536056005022 putative homodimer interface [polypeptide binding]; other site 536056005023 putative homotetramer interface [polypeptide binding]; other site 536056005024 putative homodimer-homodimer interface [polypeptide binding]; other site 536056005025 putative allosteric switch controlling residues; other site 536056005026 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 536056005027 substrate binding site [chemical binding]; other site 536056005028 multimerization interface [polypeptide binding]; other site 536056005029 ATP binding site [chemical binding]; other site 536056005030 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 536056005031 dimer interface [polypeptide binding]; other site 536056005032 substrate binding site [chemical binding]; other site 536056005033 ATP binding site [chemical binding]; other site 536056005034 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 536056005035 YegX is an uncharacterized bacterial protein with a glycosyl hydrolase family 25 (GH25) catalytic domain that is similar in sequence to the CH-type (Chalaropsis-type) lysozymes of the GH25 family of endolysins; Region: GH25_YegX-like; cd06524 536056005036 active site 536056005037 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 536056005038 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056005039 DNA-binding site [nucleotide binding]; DNA binding site 536056005040 UTRA domain; Region: UTRA; pfam07702 536056005041 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 536056005042 YegV-like sugar kinase. Found only in bacteria, YegV-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YegV_kinase_like; cd01944 536056005043 substrate binding site [chemical binding]; other site 536056005044 ATP binding site [chemical binding]; other site 536056005045 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 536056005046 nucleoside transporter; Region: 2A0110; TIGR00889 536056005047 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 536056005048 putative substrate translocation pore; other site 536056005049 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 536056005050 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 536056005051 putative active site; other site 536056005052 catalytic residue [active] 536056005053 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 536056005054 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 536056005055 intersubunit interface [polypeptide binding]; other site 536056005056 active site 536056005057 zinc binding site [ion binding]; other site 536056005058 Na+ binding site [ion binding]; other site 536056005059 D-tagatose-1,6-bisphosphate aldolase subunit GatZ; Provisional; Region: PRK15052 536056005060 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 536056005061 active site 536056005062 phosphorylation site [posttranslational modification] 536056005063 Transposase domain (DUF772); Region: DUF772; pfam05598 536056005064 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 536056005065 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 536056005066 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 536056005067 PTS system, galactitol-specific IIC component; Region: EIIC-GAT; TIGR00827 536056005068 galactitol-1-phosphate dehydrogenase; Provisional; Region: PRK10309 536056005069 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 536056005070 putative NAD(P) binding site [chemical binding]; other site 536056005071 catalytic Zn binding site [ion binding]; other site 536056005072 putative transposase OrfB; Reviewed; Region: PHA02517 536056005073 HTH-like domain; Region: HTH_21; pfam13276 536056005074 Integrase core domain; Region: rve; pfam00665 536056005075 Integrase core domain; Region: rve_2; pfam13333 536056005076 Transposase; Region: HTH_Tnp_1; cl17663 536056005077 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 536056005078 lipid kinase; Reviewed; Region: PRK13054 536056005079 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 536056005080 DNA-binding transcriptional regulator; Provisional; Region: PRK09678 536056005081 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 536056005082 putative protease; Provisional; Region: PRK15452 536056005083 Peptidase family U32; Region: Peptidase_U32; pfam01136 536056005084 Uncharacterized conserved protein [Function unknown]; Region: COG3422 536056005085 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 536056005086 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 536056005087 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 536056005088 active site 536056005089 phosphorylation site [posttranslational modification] 536056005090 intermolecular recognition site; other site 536056005091 dimerization interface [polypeptide binding]; other site 536056005092 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 536056005093 DNA binding site [nucleotide binding] 536056005094 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 536056005095 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 536056005096 dimerization interface [polypeptide binding]; other site 536056005097 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 536056005098 dimer interface [polypeptide binding]; other site 536056005099 phosphorylation site [posttranslational modification] 536056005100 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 536056005101 ATP binding site [chemical binding]; other site 536056005102 Mg2+ binding site [ion binding]; other site 536056005103 G-X-G motif; other site 536056005104 putative transporter; Provisional; Region: PRK10504 536056005105 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 536056005106 putative substrate translocation pore; other site 536056005107 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 536056005108 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 536056005109 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 536056005110 Protein export membrane protein; Region: SecD_SecF; cl14618 536056005111 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 536056005112 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536056005113 HlyD family secretion protein; Region: HlyD_3; pfam13437 536056005114 VWA subfamily: 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_subfamily; cd01464 536056005115 metal ion-dependent adhesion site (MIDAS); other site 536056005116 Protein phosphatase 2C; Region: PP2C_2; pfam13672 536056005117 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 536056005118 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 536056005119 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 536056005120 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 536056005121 substrate binding site [chemical binding]; other site 536056005122 activation loop (A-loop); other site 536056005123 Y-family of DNA polymerases; Region: PolY; cl12025 536056005124 putative chaperone; Provisional; Region: PRK11678 536056005125 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 536056005126 nucleotide binding site [chemical binding]; other site 536056005127 putative NEF/HSP70 interaction site [polypeptide binding]; other site 536056005128 SBD interface [polypeptide binding]; other site 536056005129 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 536056005130 AlkA N-terminal domain; Region: AlkA_N; smart01009 536056005131 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 536056005132 minor groove reading motif; other site 536056005133 helix-hairpin-helix signature motif; other site 536056005134 substrate binding pocket [chemical binding]; other site 536056005135 active site 536056005136 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 536056005137 putative diguanylate cyclase; Provisional; Region: PRK09776 536056005138 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 536056005139 putative active site [active] 536056005140 heme pocket [chemical binding]; other site 536056005141 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 536056005142 putative active site [active] 536056005143 heme pocket [chemical binding]; other site 536056005144 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 536056005145 putative active site [active] 536056005146 heme pocket [chemical binding]; other site 536056005147 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536056005148 metal binding site [ion binding]; metal-binding site 536056005149 active site 536056005150 I-site; other site 536056005151 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 536056005152 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 536056005153 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 536056005154 ATP-binding site [chemical binding]; other site 536056005155 Sugar specificity; other site 536056005156 Pyrimidine base specificity; other site 536056005157 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 536056005158 trimer interface [polypeptide binding]; other site 536056005159 active site 536056005160 putative assembly protein; Provisional; Region: PRK10833 536056005161 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 536056005162 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 536056005163 FOG: CBS domain [General function prediction only]; Region: COG0517 536056005164 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 536056005165 Transporter associated domain; Region: CorC_HlyC; smart01091 536056005166 polysaccharide export protein Wza; Provisional; Region: PRK15078 536056005167 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 536056005168 SLBB domain; Region: SLBB; pfam10531 536056005169 Low molecular weight phosphatase family; Region: LMWPc; cd00115 536056005170 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 536056005171 active site 536056005172 tyrosine kinase; Provisional; Region: PRK11519 536056005173 Chain length determinant protein; Region: Wzz; pfam02706 536056005174 Chain length determinant protein; Region: Wzz; cl15801 536056005175 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 536056005176 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 536056005177 putative glycosyl transferase; Provisional; Region: PRK10018 536056005178 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 536056005179 active site 536056005180 putative acyl transferase; Provisional; Region: PRK10191 536056005181 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 536056005182 trimer interface [polypeptide binding]; other site 536056005183 active site 536056005184 substrate binding site [chemical binding]; other site 536056005185 CoA binding site [chemical binding]; other site 536056005186 colanic acid biosynthesis glycosyl transferase WcaC; Region: WcaC; TIGR04015 536056005187 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 536056005188 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 536056005189 putative colanic acid polymerase WcaD; Region: WcaD; TIGR04010 536056005190 putative glycosyl transferase; Provisional; Region: PRK10063 536056005191 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 536056005192 metal-binding site 536056005193 colanic acid biosynthesis acetyltransferase WcaF; Region: WcaF; TIGR04008 536056005194 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 536056005195 putative trimer interface [polypeptide binding]; other site 536056005196 putative active site [active] 536056005197 putative substrate binding site [chemical binding]; other site 536056005198 putative CoA binding site [chemical binding]; other site 536056005199 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 536056005200 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 536056005201 NADP-binding site; other site 536056005202 homotetramer interface [polypeptide binding]; other site 536056005203 substrate binding site [chemical binding]; other site 536056005204 homodimer interface [polypeptide binding]; other site 536056005205 active site 536056005206 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 536056005207 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 536056005208 NADP binding site [chemical binding]; other site 536056005209 active site 536056005210 putative substrate binding site [chemical binding]; other site 536056005211 GDP-mannose glycosyl hydrolase (AKA GDP-mannose mannosyl hydrolase (GDPMH)) is a member of the Nudix hydrolase superfamily. This class of enzymes is unique from other members of the superfamily in two aspects. First, it contains a modified Nudix...; Region: GDPMH; cd03430 536056005212 active site 536056005213 GDP-Mannose binding site [chemical binding]; other site 536056005214 dimer interface [polypeptide binding]; other site 536056005215 modified nudix motif 536056005216 metal binding site [ion binding]; metal-binding site 536056005217 colanic acid biosynthesis glycosyl transferase WcaI; Region: wcaI; TIGR04007 536056005218 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 536056005219 mannose-1-phosphate guanyltransferase; Provisional; Region: cpsB; PRK15460 536056005220 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 536056005221 Substrate binding site; other site 536056005222 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 536056005223 phosphomannomutase CpsG; Provisional; Region: PRK15414 536056005224 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 536056005225 active site 536056005226 substrate binding site [chemical binding]; other site 536056005227 metal binding site [ion binding]; metal-binding site 536056005228 putative UDP-glucose lipid carrier transferase; Provisional; Region: PRK10124 536056005229 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 536056005230 colanic acid exporter; Provisional; Region: PRK10459 536056005231 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 536056005232 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 536056005233 colanic acid biosynthesis pyruvyl transferase WcaK; Region: wcaK; TIGR04006 536056005234 colanic acid biosynthesis glycosyltransferase WcaL; Region: wcaL; TIGR04005 536056005235 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 536056005236 putative ADP-binding pocket [chemical binding]; other site 536056005237 putative colanic acid biosynthesis protein; Provisional; Region: wcaM; PRK10123 536056005238 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 536056005239 active site 536056005240 tetramer interface; other site 536056005241 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 536056005242 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 536056005243 NAD binding site [chemical binding]; other site 536056005244 substrate binding site [chemical binding]; other site 536056005245 homodimer interface [polypeptide binding]; other site 536056005246 active site 536056005247 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 536056005248 NADP binding site [chemical binding]; other site 536056005249 active site 536056005250 putative substrate binding site [chemical binding]; other site 536056005251 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 536056005252 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 536056005253 substrate binding site; other site 536056005254 tetramer interface; other site 536056005255 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 536056005256 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 536056005257 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 536056005258 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 536056005259 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 536056005260 UDP-galactopyranose mutase; Region: GLF; pfam03275 536056005261 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 536056005262 putative lipopolysaccharide biosynthesis O-acetyl transferase WbbJ; Provisional; Region: PRK09677 536056005263 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 536056005264 trimer interface [polypeptide binding]; other site 536056005265 active site 536056005266 substrate binding site [chemical binding]; other site 536056005267 CoA binding site [chemical binding]; other site 536056005268 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 536056005269 Glycosyl transferases group 1; Region: Glycos_transf_1; pfam00534 536056005270 Transposase domain (DUF772); Region: DUF772; pfam05598 536056005271 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 536056005272 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 536056005273 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 536056005274 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 536056005275 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 536056005276 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 536056005277 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 536056005278 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 536056005279 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 536056005280 chain length determinant protein WzzB; Provisional; Region: PRK15471 536056005281 Chain length determinant protein; Region: Wzz; pfam02706 536056005282 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 536056005283 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 536056005284 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 536056005285 metal binding site [ion binding]; metal-binding site 536056005286 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 536056005287 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 536056005288 substrate binding site [chemical binding]; other site 536056005289 glutamase interaction surface [polypeptide binding]; other site 536056005290 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 536056005291 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 536056005292 catalytic residues [active] 536056005293 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 536056005294 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 536056005295 putative active site [active] 536056005296 oxyanion strand; other site 536056005297 catalytic triad [active] 536056005298 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 536056005299 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 536056005300 active site 536056005301 motif I; other site 536056005302 motif II; other site 536056005303 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 536056005304 putative active site pocket [active] 536056005305 4-fold oligomerization interface [polypeptide binding]; other site 536056005306 metal binding residues [ion binding]; metal-binding site 536056005307 3-fold/trimer interface [polypeptide binding]; other site 536056005308 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 536056005309 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 536056005310 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056005311 homodimer interface [polypeptide binding]; other site 536056005312 catalytic residue [active] 536056005313 Histidinol dehydrogenase; Region: Histidinol_dh; pfam00815 536056005314 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 536056005315 NAD binding site [chemical binding]; other site 536056005316 dimerization interface [polypeptide binding]; other site 536056005317 product binding site; other site 536056005318 substrate binding site [chemical binding]; other site 536056005319 zinc binding site [ion binding]; other site 536056005320 catalytic residues [active] 536056005321 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 536056005322 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 536056005323 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 536056005324 antitoxin YefM; Provisional; Region: PRK11409 536056005325 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 536056005326 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 536056005327 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 536056005328 putative NAD(P) binding site [chemical binding]; other site 536056005329 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056005330 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 536056005331 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 536056005332 dimerization interface [polypeptide binding]; other site 536056005333 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 536056005334 Sulphur transport; Region: Sulf_transp; pfam04143 536056005335 Sulphur transport; Region: Sulf_transp; pfam04143 536056005336 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 536056005337 CPxP motif; other site 536056005338 exonuclease I; Provisional; Region: sbcB; PRK11779 536056005339 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 536056005340 active site 536056005341 catalytic site [active] 536056005342 substrate binding site [chemical binding]; other site 536056005343 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 536056005344 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 536056005345 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 536056005346 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 536056005347 DNA gyrase inhibitor; Provisional; Region: PRK10016 536056005348 Predicted membrane protein [Function unknown]; Region: COG1289 536056005349 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 536056005350 hypothetical protein; Provisional; Region: PRK05423 536056005351 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 536056005352 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 536056005353 Protein of unknown function (DUF987); Region: DUF987; pfam06174 536056005354 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 536056005355 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 536056005356 MPN+ (JAMM) motif; other site 536056005357 Zinc-binding site [ion binding]; other site 536056005358 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 536056005359 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 536056005360 hypothetical protein; Provisional; Region: PRK09945 536056005361 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 536056005362 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 536056005363 Autotransporter beta-domain; Region: Autotransporter; smart00869 536056005364 Predicted GTPase [General function prediction only]; Region: COG3596 536056005365 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 536056005366 Switch II region; other site 536056005367 G4 box; other site 536056005368 G5 box; other site 536056005369 IS2 repressor TnpA; Reviewed; Region: PRK09413 536056005370 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 536056005371 IS2 transposase TnpB; Reviewed; Region: PRK09409 536056005372 HTH-like domain; Region: HTH_21; pfam13276 536056005373 Integrase core domain; Region: rve; pfam00665 536056005374 Integrase core domain; Region: rve_3; pfam13683 536056005375 Transposase domain (DUF772); Region: DUF772; pfam05598 536056005376 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 536056005377 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 536056005378 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 536056005379 homotrimer interface [polypeptide binding]; other site 536056005380 Walker A motif; other site 536056005381 GTP binding site [chemical binding]; other site 536056005382 Walker B motif; other site 536056005383 cobalamin 5'-phosphate synthase/cobalamin synthase; Region: cobS; TIGR00317 536056005384 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 536056005385 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 536056005386 putative dimer interface [polypeptide binding]; other site 536056005387 active site pocket [active] 536056005388 putative cataytic base [active] 536056005389 L,D-transpeptidase; Provisional; Region: PRK10190 536056005390 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 536056005391 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 536056005392 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056005393 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 536056005394 putative dimerization interface [polypeptide binding]; other site 536056005395 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 536056005396 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056005397 The C-terminal substrate binding domain of LysR-type transcriptional regulator Cbl, which is required for expression of sulfate starvation-inducible (ssi) genes, contains the type 2 periplasmic binding fold; Region: PBP2_Cbl; cd08444 536056005398 putative substrate binding site [chemical binding]; other site 536056005399 dimerization interface [polypeptide binding]; other site 536056005400 MATE family multidrug exporter; Provisional; Region: PRK10189 536056005401 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 536056005402 hypothetical protein; Provisional; Region: PRK12378 536056005403 AMP nucleosidase; Provisional; Region: PRK08292 536056005404 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 536056005405 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 536056005406 shikimate transporter; Provisional; Region: PRK09952 536056005407 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 536056005408 putative substrate translocation pore; other site 536056005409 putative invasin; Provisional; Region: PRK10177 536056005410 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 536056005411 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 536056005412 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 536056005413 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 536056005414 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 536056005415 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 536056005416 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 536056005417 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 536056005418 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 536056005419 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 536056005420 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 536056005421 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 536056005422 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 536056005423 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 536056005424 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 536056005425 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 536056005426 zinc/cadmium-binding protein; Provisional; Region: PRK10306 536056005427 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 536056005428 TMAO/DMSO reductase; Reviewed; Region: PRK05363 536056005429 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 536056005430 Moco binding site; other site 536056005431 metal coordination site [ion binding]; other site 536056005432 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 536056005433 active site 536056005434 homotetramer interface [polypeptide binding]; other site 536056005435 transcriptional regulatory protein YedW; Provisional; Region: PRK11517 536056005436 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 536056005437 active site 536056005438 phosphorylation site [posttranslational modification] 536056005439 intermolecular recognition site; other site 536056005440 dimerization interface [polypeptide binding]; other site 536056005441 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 536056005442 DNA binding site [nucleotide binding] 536056005443 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 536056005444 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 536056005445 dimer interface [polypeptide binding]; other site 536056005446 phosphorylation site [posttranslational modification] 536056005447 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 536056005448 ATP binding site [chemical binding]; other site 536056005449 Mg2+ binding site [ion binding]; other site 536056005450 G-X-G motif; other site 536056005451 chaperone protein HchA; Provisional; Region: PRK04155 536056005452 Type 1 glutamine amidotransferase (GATase1)-like domain found in Escherichia coli Hsp31 protein (EcHsp31); Region: GATase1_EcHsp31_like; cd03148 536056005453 dimer interface [polypeptide binding]; other site 536056005454 metal binding site [ion binding]; metal-binding site 536056005455 potential oxyanion hole; other site 536056005456 potential catalytic triad [active] 536056005457 conserved cys residue [active] 536056005458 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 536056005459 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 536056005460 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536056005461 Zn2+ binding site [ion binding]; other site 536056005462 Mg2+ binding site [ion binding]; other site 536056005463 DNA cytosine methylase; Provisional; Region: PRK10458 536056005464 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 536056005465 cofactor binding site; other site 536056005466 DNA binding site [nucleotide binding] 536056005467 substrate interaction site [chemical binding]; other site 536056005468 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 536056005469 additional DNA contacts [nucleotide binding]; other site 536056005470 mismatch recognition site; other site 536056005471 active site 536056005472 zinc binding site [ion binding]; other site 536056005473 DNA intercalation site [nucleotide binding]; other site 536056005474 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 536056005475 EamA-like transporter family; Region: EamA; pfam00892 536056005476 hypothetical protein; Provisional; Region: PRK10062 536056005477 Uncharacterized small protein [Function unknown]; Region: COG5475 536056005478 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 536056005479 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536056005480 metal binding site [ion binding]; metal-binding site 536056005481 active site 536056005482 I-site; other site 536056005483 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK03669 536056005484 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 536056005485 active site 536056005486 motif I; other site 536056005487 motif II; other site 536056005488 Protein of unknown function (DUF2525); Region: DUF2525; pfam10733 536056005489 hypothetical protein; Provisional; Region: PRK10708 536056005490 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 536056005491 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 536056005492 DNA binding residues [nucleotide binding] 536056005493 dimerization interface [polypeptide binding]; other site 536056005494 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 536056005495 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 536056005496 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 536056005497 flagellar biosynthesis protein FliO; Provisional; Region: PRK11486 536056005498 flagellar motor switch protein FliN; Validated; Region: fliN; PRK07963 536056005499 flagellar motor switch protein; Validated; Region: fliN; PRK05698 536056005500 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 536056005501 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 536056005502 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 536056005503 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 536056005504 flagellar hook-length control protein; Provisional; Region: PRK10118 536056005505 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 536056005506 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 536056005507 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 536056005508 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 536056005509 Walker A motif/ATP binding site; other site 536056005510 Walker B motif; other site 536056005511 flagellar assembly protein H; Validated; Region: fliH; PRK05687 536056005512 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 536056005513 Flagellar assembly protein FliH; Region: FliH; pfam02108 536056005514 flagellar motor switch protein FliG; Region: fliG; TIGR00207 536056005515 FliG C-terminal domain; Region: FliG_C; pfam01706 536056005516 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 536056005517 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 536056005518 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 536056005519 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 536056005520 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 536056005521 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536056005522 Coenzyme A binding pocket [chemical binding]; other site 536056005523 hypothetical protein; Provisional; Region: PRK09951 536056005524 YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system...; Region: YedF; cd03422 536056005525 CPxP motif; other site 536056005526 putative inner membrane protein; Provisional; Region: PRK11099 536056005527 lipoprotein; Provisional; Region: PRK10397 536056005528 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 536056005529 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 536056005530 active site 536056005531 Na/Ca binding site [ion binding]; other site 536056005532 catalytic site [active] 536056005533 flagellar biosynthesis protein FliT; Provisional; Region: PRK10548 536056005534 flagellar biosynthetic protein FliS; Region: fliS; TIGR00208 536056005535 flagellar capping protein; Reviewed; Region: fliD; PRK08032 536056005536 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 536056005537 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 536056005538 flagellin; Validated; Region: PRK08026 536056005539 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 536056005540 Flagellin D3 domain; Region: Flagellin_D3; pfam08884 536056005541 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 536056005542 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 536056005543 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536056005544 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 536056005545 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 536056005546 DNA binding residues [nucleotide binding] 536056005547 flagella biosynthesis protein FliZ; Provisional; Region: PRK11582 536056005548 cystine transporter subunit; Provisional; Region: PRK11260 536056005549 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 536056005550 substrate binding pocket [chemical binding]; other site 536056005551 membrane-bound complex binding site; other site 536056005552 hinge residues; other site 536056005553 D-cysteine desulfhydrase; Validated; Region: PRK03910 536056005554 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 536056005555 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056005556 catalytic residue [active] 536056005557 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536056005558 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 536056005559 dimer interface [polypeptide binding]; other site 536056005560 conserved gate region; other site 536056005561 putative PBP binding loops; other site 536056005562 ABC-ATPase subunit interface; other site 536056005563 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 536056005564 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 536056005565 Walker A/P-loop; other site 536056005566 ATP binding site [chemical binding]; other site 536056005567 Q-loop/lid; other site 536056005568 ABC transporter signature motif; other site 536056005569 Walker B; other site 536056005570 D-loop; other site 536056005571 H-loop/switch region; other site 536056005572 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 536056005573 Autoinducer binding domain; Region: Autoind_bind; pfam03472 536056005574 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 536056005575 DNA binding residues [nucleotide binding] 536056005576 dimerization interface [polypeptide binding]; other site 536056005577 hypothetical protein; Provisional; Region: PRK10613 536056005578 response regulator; Provisional; Region: PRK09483 536056005579 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 536056005580 active site 536056005581 phosphorylation site [posttranslational modification] 536056005582 intermolecular recognition site; other site 536056005583 dimerization interface [polypeptide binding]; other site 536056005584 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 536056005585 DNA binding residues [nucleotide binding] 536056005586 dimerization interface [polypeptide binding]; other site 536056005587 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 536056005588 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 536056005589 GIY-YIG motif/motif A; other site 536056005590 active site 536056005591 catalytic site [active] 536056005592 putative DNA binding site [nucleotide binding]; other site 536056005593 metal binding site [ion binding]; metal-binding site 536056005594 UvrB/uvrC motif; Region: UVR; pfam02151 536056005595 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 536056005596 Helix-hairpin-helix motif; Region: HHH; pfam00633 536056005597 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 536056005598 hypothetical protein; Provisional; Region: PRK10396 536056005599 yecA family protein; Region: ygfB_yecA; TIGR02292 536056005600 SEC-C motif; Region: SEC-C; pfam02810 536056005601 tyrosine transporter TyrP; Provisional; Region: PRK15132 536056005602 aromatic amino acid transport protein; Region: araaP; TIGR00837 536056005603 probable metal-binding protein; Region: matur_matur; TIGR03853 536056005604 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 536056005605 Ferritin-like domain; Region: Ferritin; pfam00210 536056005606 ferroxidase diiron center [ion binding]; other site 536056005607 YecR-like lipoprotein; Region: YecR; pfam13992 536056005608 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 536056005609 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 536056005610 Ferritin-like domain; Region: Ferritin; pfam00210 536056005611 ferroxidase diiron center [ion binding]; other site 536056005612 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 536056005613 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 536056005614 ligand binding site [chemical binding]; other site 536056005615 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 536056005616 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 536056005617 Walker A/P-loop; other site 536056005618 ATP binding site [chemical binding]; other site 536056005619 Q-loop/lid; other site 536056005620 ABC transporter signature motif; other site 536056005621 Walker B; other site 536056005622 D-loop; other site 536056005623 H-loop/switch region; other site 536056005624 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 536056005625 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 536056005626 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536056005627 TM-ABC transporter signature motif; other site 536056005628 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187 536056005629 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 536056005630 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 536056005631 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 536056005632 active site 536056005633 homotetramer interface [polypeptide binding]; other site 536056005634 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 536056005635 Ligand Binding Site [chemical binding]; other site 536056005636 transcriptional activator FlhD; Provisional; Region: PRK02909 536056005637 transcriptional activator FlhC; Provisional; Region: PRK12722 536056005638 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 536056005639 flagellar motor protein MotA; Validated; Region: PRK09110 536056005640 flagellar motor protein MotB; Validated; Region: motB; PRK09041 536056005641 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 536056005642 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536056005643 ligand binding site [chemical binding]; other site 536056005644 chemotaxis protein CheA; Provisional; Region: PRK10547 536056005645 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 536056005646 putative binding surface; other site 536056005647 active site 536056005648 CheY binding; Region: CheY-binding; pfam09078 536056005649 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 536056005650 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 536056005651 ATP binding site [chemical binding]; other site 536056005652 Mg2+ binding site [ion binding]; other site 536056005653 G-X-G motif; other site 536056005654 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 536056005655 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 536056005656 putative CheA interaction surface; other site 536056005657 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 536056005658 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 536056005659 dimer interface [polypeptide binding]; other site 536056005660 ligand binding site [chemical binding]; other site 536056005661 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 536056005662 dimerization interface [polypeptide binding]; other site 536056005663 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536056005664 dimer interface [polypeptide binding]; other site 536056005665 putative CheW interface [polypeptide binding]; other site 536056005666 methyl-accepting protein IV; Provisional; Region: PRK09793 536056005667 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 536056005668 dimer interface [polypeptide binding]; other site 536056005669 ligand binding site [chemical binding]; other site 536056005670 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 536056005671 dimerization interface [polypeptide binding]; other site 536056005672 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536056005673 dimer interface [polypeptide binding]; other site 536056005674 putative CheW interface [polypeptide binding]; other site 536056005675 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 536056005676 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 536056005677 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 536056005678 S-adenosylmethionine binding site [chemical binding]; other site 536056005679 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 536056005680 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 536056005681 active site 536056005682 phosphorylation site [posttranslational modification] 536056005683 intermolecular recognition site; other site 536056005684 dimerization interface [polypeptide binding]; other site 536056005685 CheB methylesterase; Region: CheB_methylest; pfam01339 536056005686 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 536056005687 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 536056005688 active site 536056005689 phosphorylation site [posttranslational modification] 536056005690 intermolecular recognition site; other site 536056005691 dimerization interface [polypeptide binding]; other site 536056005692 chemotaxis regulator CheZ; Provisional; Region: PRK11166 536056005693 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 536056005694 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 536056005695 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 536056005696 FHIPEP family; Region: FHIPEP; pfam00771 536056005697 Flagellar protein FlhE; Region: FlhE; pfam06366 536056005698 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 536056005699 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 536056005700 arginyl-tRNA synthetase; Region: argS; TIGR00456 536056005701 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 536056005702 active site 536056005703 HIGH motif; other site 536056005704 KMSK motif region; other site 536056005705 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 536056005706 tRNA binding surface [nucleotide binding]; other site 536056005707 anticodon binding site; other site 536056005708 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_4; cd07268 536056005709 putative metal binding site [ion binding]; other site 536056005710 copper homeostasis protein CutC; Provisional; Region: PRK11572 536056005711 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 536056005712 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 536056005713 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 536056005714 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 536056005715 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 536056005716 molybdopterin cofactor binding site [chemical binding]; other site 536056005717 substrate binding site [chemical binding]; other site 536056005718 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 536056005719 molybdopterin cofactor binding site; other site 536056005720 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 536056005721 S-adenosylmethionine binding site [chemical binding]; other site 536056005722 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 536056005723 S-adenosylmethionine binding site [chemical binding]; other site 536056005724 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 536056005725 hypothetical protein; Provisional; Region: PRK10302 536056005726 Isochorismatase family; Region: Isochorismatase; pfam00857 536056005727 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 536056005728 catalytic triad [active] 536056005729 conserved cis-peptide bond; other site 536056005730 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 536056005731 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 536056005732 dimer interface [polypeptide binding]; other site 536056005733 anticodon binding site; other site 536056005734 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 536056005735 homodimer interface [polypeptide binding]; other site 536056005736 motif 1; other site 536056005737 active site 536056005738 motif 2; other site 536056005739 GAD domain; Region: GAD; pfam02938 536056005740 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 536056005741 motif 3; other site 536056005742 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_7; cd04664 536056005743 nudix motif; other site 536056005744 hypothetical protein; Validated; Region: PRK00110 536056005745 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 536056005746 active site 536056005747 putative DNA-binding cleft [nucleotide binding]; other site 536056005748 dimer interface [polypeptide binding]; other site 536056005749 hypothetical protein; Provisional; Region: PRK11470 536056005750 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 536056005751 RuvA N terminal domain; Region: RuvA_N; pfam01330 536056005752 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 536056005753 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 536056005754 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 536056005755 Walker A motif; other site 536056005756 ATP binding site [chemical binding]; other site 536056005757 Walker B motif; other site 536056005758 arginine finger; other site 536056005759 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 536056005760 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 536056005761 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 536056005762 ABC-ATPase subunit interface; other site 536056005763 dimer interface [polypeptide binding]; other site 536056005764 putative PBP binding regions; other site 536056005765 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 536056005766 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 536056005767 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 536056005768 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 536056005769 metal binding site [ion binding]; metal-binding site 536056005770 putative peptidase; Provisional; Region: PRK11649 536056005771 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 536056005772 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 536056005773 Peptidase family M23; Region: Peptidase_M23; pfam01551 536056005774 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 536056005775 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 536056005776 putative acyl-acceptor binding pocket; other site 536056005777 pyruvate kinase; Provisional; Region: PRK05826 536056005778 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 536056005779 domain interfaces; other site 536056005780 active site 536056005781 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 536056005782 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 536056005783 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 536056005784 putative active site [active] 536056005785 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 536056005786 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 536056005787 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 536056005788 phosphogluconate dehydratase; Validated; Region: PRK09054 536056005789 6-phosphogluconate dehydratase; Region: edd; TIGR01196 536056005790 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 536056005791 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 536056005792 active site 536056005793 intersubunit interface [polypeptide binding]; other site 536056005794 catalytic residue [active] 536056005795 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 536056005796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536056005797 ATP-grasp domain; Region: ATP-grasp; pfam02222 536056005798 DNA damage-inducible protein YebG; Provisional; Region: PRK10061 536056005799 hypothetical protein; Provisional; Region: PRK13680 536056005800 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 536056005801 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 536056005802 putative metal binding site [ion binding]; other site 536056005803 protease 2; Provisional; Region: PRK10115 536056005804 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 536056005805 exodeoxyribonuclease X; Provisional; Region: PRK07983 536056005806 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 536056005807 active site 536056005808 catalytic site [active] 536056005809 substrate binding site [chemical binding]; other site 536056005810 Predicted amidohydrolase [General function prediction only]; Region: COG0388 536056005811 Carbon-nitrogen hydrolase; Region: CN_hydrolase; pfam00795 536056005812 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 536056005813 hypothetical protein; Provisional; Region: PRK10301 536056005814 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 536056005815 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 536056005816 serine/threonine protein phosphatase 1; Provisional; Region: pphA; PRK11439 536056005817 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 536056005818 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 536056005819 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 536056005820 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 536056005821 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 536056005822 S-adenosylmethionine binding site [chemical binding]; other site 536056005823 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 536056005824 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 536056005825 mce related protein; Region: MCE; pfam02470 536056005826 mce related protein; Region: MCE; pfam02470 536056005827 mce related protein; Region: MCE; pfam02470 536056005828 mce related protein; Region: MCE; pfam02470 536056005829 mce related protein; Region: MCE; pfam02470 536056005830 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 536056005831 Paraquat-inducible protein A; Region: PqiA; pfam04403 536056005832 Paraquat-inducible protein A; Region: PqiA; pfam04403 536056005833 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 536056005834 GAF domain; Region: GAF_2; pfam13185 536056005835 ProP expression regulator; Provisional; Region: PRK04950 536056005836 ProQ/FINO family; Region: ProQ; pfam04352 536056005837 carboxy-terminal protease; Provisional; Region: PRK11186 536056005838 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 536056005839 protein binding site [polypeptide binding]; other site 536056005840 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 536056005841 Catalytic dyad [active] 536056005842 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 536056005843 heat shock protein HtpX; Provisional; Region: PRK05457 536056005844 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 536056005845 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536056005846 putative substrate translocation pore; other site 536056005847 Predicted integral membrane protein [Function unknown]; Region: COG5521 536056005848 Transposase domain (DUF772); Region: DUF772; pfam05598 536056005849 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 536056005850 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 536056005851 YobH-like protein; Region: YobH; pfam13996 536056005852 PhoPQ regulatory protein; Provisional; Region: PRK10299 536056005853 YebO-like protein; Region: YebO; pfam13974 536056005854 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 536056005855 DNA-binding site [nucleotide binding]; DNA binding site 536056005856 RNA-binding motif; other site 536056005857 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 536056005858 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 536056005859 S-adenosylmethionine binding site [chemical binding]; other site 536056005860 hypothetical protein; Provisional; Region: PRK11469 536056005861 Domain of unknown function DUF; Region: DUF204; pfam02659 536056005862 Domain of unknown function DUF; Region: DUF204; pfam02659 536056005863 Predicted membrane protein [Function unknown]; Region: COG4811 536056005864 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 536056005865 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 536056005866 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 536056005867 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 536056005868 active pocket/dimerization site; other site 536056005869 active site 536056005870 phosphorylation site [posttranslational modification] 536056005871 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 536056005872 active site 536056005873 phosphorylation site [posttranslational modification] 536056005874 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 536056005875 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 536056005876 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 536056005877 Transporter associated domain; Region: CorC_HlyC; smart01091 536056005878 phage resistance protein; Provisional; Region: PRK10551 536056005879 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 536056005880 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 536056005881 L-serine deaminase; Provisional; Region: PRK15023 536056005882 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 536056005883 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 536056005884 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 536056005885 putative active site [active] 536056005886 putative CoA binding site [chemical binding]; other site 536056005887 nudix motif; other site 536056005888 metal binding site [ion binding]; metal-binding site 536056005889 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 536056005890 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 536056005891 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 536056005892 hypothetical protein; Provisional; Region: PRK05114 536056005893 Domain of unknown function (DUF1889); Region: DUF1889; pfam08986 536056005894 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 536056005895 homotrimer interaction site [polypeptide binding]; other site 536056005896 putative active site [active] 536056005897 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 536056005898 DEAD/DEAH box helicase; Region: DEAD; pfam00270 536056005899 DEAD_2; Region: DEAD_2; pfam06733 536056005900 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 536056005901 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 536056005902 Glycoprotease family; Region: Peptidase_M22; pfam00814 536056005903 outer membrane lipoprotein, Slp family; Region: slp; TIGR00752 536056005904 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 536056005905 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 536056005906 acyl-activating enzyme (AAE) consensus motif; other site 536056005907 putative AMP binding site [chemical binding]; other site 536056005908 putative active site [active] 536056005909 putative CoA binding site [chemical binding]; other site 536056005910 ribonuclease D; Provisional; Region: PRK10829 536056005911 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 536056005912 catalytic site [active] 536056005913 putative active site [active] 536056005914 putative substrate binding site [chemical binding]; other site 536056005915 Helicase and RNase D C-terminal; Region: HRDC; smart00341 536056005916 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 536056005917 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 536056005918 FMN-binding pocket [chemical binding]; other site 536056005919 flavin binding motif; other site 536056005920 phosphate binding motif [ion binding]; other site 536056005921 beta-alpha-beta structure motif; other site 536056005922 NAD binding pocket [chemical binding]; other site 536056005923 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 536056005924 catalytic loop [active] 536056005925 iron binding site [ion binding]; other site 536056005926 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 536056005927 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 536056005928 [2Fe-2S] cluster binding site [ion binding]; other site 536056005929 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_2; cd08886 536056005930 putative alpha subunit interface [polypeptide binding]; other site 536056005931 putative active site [active] 536056005932 putative substrate binding site [chemical binding]; other site 536056005933 Fe binding site [ion binding]; other site 536056005934 putative transporter; Provisional; Region: PRK09950 536056005935 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 536056005936 tartrate dehydrogenase; Region: TTC; TIGR02089 536056005937 transcriptional activator TtdR; Provisional; Region: PRK09801 536056005938 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056005939 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 536056005940 putative effector binding pocket; other site 536056005941 putative dimerization interface [polypeptide binding]; other site 536056005942 leucine export protein LeuE; Provisional; Region: PRK10958 536056005943 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 536056005944 Domain of unknown function (DUF1869); Region: DUF1869; pfam08956 536056005945 hypothetical protein; Provisional; Region: PRK10457 536056005946 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 536056005947 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 536056005948 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536056005949 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536056005950 metal binding site [ion binding]; metal-binding site 536056005951 active site 536056005952 I-site; other site 536056005953 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 536056005954 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 536056005955 Domain of unknown function (DUF333); Region: DUF333; pfam03891 536056005956 Uncharacterized conserved protein [Function unknown]; Region: COG3189 536056005957 cyanate transporter; Region: CynX; TIGR00896 536056005958 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 536056005959 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536056005960 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056005961 Predicted membrane protein [Function unknown]; Region: COG2707 536056005962 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 536056005963 putative deacylase active site [active] 536056005964 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536056005965 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536056005966 metal binding site [ion binding]; metal-binding site 536056005967 active site 536056005968 I-site; other site 536056005969 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536056005970 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536056005971 metal binding site [ion binding]; metal-binding site 536056005972 active site 536056005973 I-site; other site 536056005974 hypothetical protein; Provisional; Region: PRK05325 536056005975 PrkA family serine protein kinase; Provisional; Region: PRK15455 536056005976 AAA ATPase domain; Region: AAA_16; pfam13191 536056005977 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 536056005978 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 536056005979 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 536056005980 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 536056005981 active site 536056005982 catalytic tetrad [active] 536056005983 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 536056005984 active site 536056005985 phosphate binding residues; other site 536056005986 catalytic residues [active] 536056005987 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 536056005988 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 536056005989 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 536056005990 methionine sulfoxide reductase B; Provisional; Region: PRK00222 536056005991 SelR domain; Region: SelR; pfam01641 536056005992 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 536056005993 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 536056005994 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 536056005995 putative NAD(P) binding site [chemical binding]; other site 536056005996 catalytic Zn binding site [ion binding]; other site 536056005997 structural Zn binding site [ion binding]; other site 536056005998 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 536056005999 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 536056006000 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 536056006001 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 536056006002 inhibitor binding site; inhibition site 536056006003 catalytic Zn binding site [ion binding]; other site 536056006004 structural Zn binding site [ion binding]; other site 536056006005 NADP binding site [chemical binding]; other site 536056006006 tetramer interface [polypeptide binding]; other site 536056006007 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 536056006008 intersubunit interface [polypeptide binding]; other site 536056006009 active site 536056006010 zinc binding site [ion binding]; other site 536056006011 Na+ binding site [ion binding]; other site 536056006012 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 536056006013 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 536056006014 substrate binding site [chemical binding]; other site 536056006015 ATP binding site [chemical binding]; other site 536056006016 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 536056006017 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 536056006018 active site 536056006019 catalytic tetrad [active] 536056006020 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 536056006021 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 536056006022 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 536056006023 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 536056006024 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 536056006025 putative substrate translocation pore; other site 536056006026 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 536056006027 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 536056006028 Isochorismatase family; Region: Isochorismatase; pfam00857 536056006029 catalytic triad [active] 536056006030 metal binding site [ion binding]; metal-binding site 536056006031 conserved cis-peptide bond; other site 536056006032 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 536056006033 active site 536056006034 homodimer interface [polypeptide binding]; other site 536056006035 protease 4; Provisional; Region: PRK10949 536056006036 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 536056006037 tandem repeat interface [polypeptide binding]; other site 536056006038 oligomer interface [polypeptide binding]; other site 536056006039 active site residues [active] 536056006040 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 536056006041 tandem repeat interface [polypeptide binding]; other site 536056006042 oligomer interface [polypeptide binding]; other site 536056006043 active site residues [active] 536056006044 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 536056006045 putative FMN binding site [chemical binding]; other site 536056006046 selenophosphate synthetase; Provisional; Region: PRK00943 536056006047 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 536056006048 dimerization interface [polypeptide binding]; other site 536056006049 putative ATP binding site [chemical binding]; other site 536056006050 DNA topoisomerase III; Provisional; Region: PRK07726 536056006051 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 536056006052 active site 536056006053 putative interdomain interaction site [polypeptide binding]; other site 536056006054 putative metal-binding site [ion binding]; other site 536056006055 putative nucleotide binding site [chemical binding]; other site 536056006056 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 536056006057 domain I; other site 536056006058 DNA binding groove [nucleotide binding] 536056006059 phosphate binding site [ion binding]; other site 536056006060 domain II; other site 536056006061 domain III; other site 536056006062 nucleotide binding site [chemical binding]; other site 536056006063 catalytic site [active] 536056006064 domain IV; other site 536056006065 hypothetical protein; Provisional; Region: PRK11380 536056006066 glutamate dehydrogenase; Provisional; Region: PRK09414 536056006067 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 536056006068 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 536056006069 NAD(P) binding site [chemical binding]; other site 536056006070 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 536056006071 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 536056006072 active site 536056006073 8-oxo-dGMP binding site [chemical binding]; other site 536056006074 nudix motif; other site 536056006075 metal binding site [ion binding]; metal-binding site 536056006076 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 536056006077 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 536056006078 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 536056006079 active site residue [active] 536056006080 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 536056006081 active site residue [active] 536056006082 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 536056006083 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056006084 Walker A/P-loop; other site 536056006085 ATP binding site [chemical binding]; other site 536056006086 Q-loop/lid; other site 536056006087 ABC transporter signature motif; other site 536056006088 Walker B; other site 536056006089 D-loop; other site 536056006090 H-loop/switch region; other site 536056006091 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 536056006092 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 536056006093 dimer interface [polypeptide binding]; other site 536056006094 conserved gate region; other site 536056006095 putative PBP binding loops; other site 536056006096 ABC-ATPase subunit interface; other site 536056006097 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 536056006098 hypothetical protein; Provisional; Region: PRK11622 536056006099 Uncharacterized conserved protein [Function unknown]; Region: COG2128 536056006100 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 536056006101 Uncharacterized conserved protein [Function unknown]; Region: COG0398 536056006102 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 536056006103 Uncharacterized conserved protein [Function unknown]; Region: COG0398 536056006104 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 536056006105 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 536056006106 putative catalytic site [active] 536056006107 putative phosphate binding site [ion binding]; other site 536056006108 active site 536056006109 metal binding site A [ion binding]; metal-binding site 536056006110 DNA binding site [nucleotide binding] 536056006111 putative AP binding site [nucleotide binding]; other site 536056006112 putative metal binding site B [ion binding]; other site 536056006113 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 536056006114 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 536056006115 inhibitor-cofactor binding pocket; inhibition site 536056006116 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056006117 catalytic residue [active] 536056006118 arginine succinyltransferase; Provisional; Region: PRK10456 536056006119 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 536056006120 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 536056006121 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 536056006122 NAD(P) binding site [chemical binding]; other site 536056006123 catalytic residues [active] 536056006124 succinylarginine dihydrolase; Provisional; Region: PRK13281 536056006125 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 536056006126 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 536056006127 putative active site [active] 536056006128 Zn binding site [ion binding]; other site 536056006129 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 536056006130 dimer interface [polypeptide binding]; other site 536056006131 hypothetical protein; Provisional; Region: PRK11396 536056006132 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 536056006133 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 536056006134 GIY-YIG motif/motif A; other site 536056006135 active site 536056006136 catalytic site [active] 536056006137 putative DNA binding site [nucleotide binding]; other site 536056006138 metal binding site [ion binding]; metal-binding site 536056006139 NAD+ synthetase; Region: nadE; TIGR00552 536056006140 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 536056006141 homodimer interface [polypeptide binding]; other site 536056006142 NAD binding pocket [chemical binding]; other site 536056006143 ATP binding pocket [chemical binding]; other site 536056006144 Mg binding site [ion binding]; other site 536056006145 active-site loop [active] 536056006146 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 536056006147 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 536056006148 active site 536056006149 P-loop; other site 536056006150 phosphorylation site [posttranslational modification] 536056006151 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC; Provisional; Region: PRK10297 536056006152 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 536056006153 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 536056006154 methionine cluster; other site 536056006155 active site 536056006156 phosphorylation site [posttranslational modification] 536056006157 metal binding site [ion binding]; metal-binding site 536056006158 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 536056006159 Cupin domain; Region: Cupin_2; pfam07883 536056006160 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056006161 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 536056006162 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 536056006163 NAD binding site [chemical binding]; other site 536056006164 sugar binding site [chemical binding]; other site 536056006165 divalent metal binding site [ion binding]; other site 536056006166 tetramer (dimer of dimers) interface [polypeptide binding]; other site 536056006167 dimer interface [polypeptide binding]; other site 536056006168 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 536056006169 putative active site [active] 536056006170 YdjC motif; other site 536056006171 Mg binding site [ion binding]; other site 536056006172 putative homodimer interface [polypeptide binding]; other site 536056006173 hydroperoxidase II; Provisional; Region: katE; PRK11249 536056006174 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 536056006175 tetramer interface [polypeptide binding]; other site 536056006176 heme binding pocket [chemical binding]; other site 536056006177 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 536056006178 domain interactions; other site 536056006179 cell division modulator; Provisional; Region: PRK10113 536056006180 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 536056006181 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 536056006182 inner membrane protein; Provisional; Region: PRK11648 536056006183 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 536056006184 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 536056006185 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 536056006186 motif II; other site 536056006187 YniB-like protein; Region: YniB; pfam14002 536056006188 Phosphotransferase enzyme family; Region: APH; pfam01636 536056006189 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 536056006190 active site 536056006191 ATP binding site [chemical binding]; other site 536056006192 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 536056006193 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 536056006194 6-phosphofructokinase 2; Provisional; Region: PRK10294 536056006195 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 536056006196 putative substrate binding site [chemical binding]; other site 536056006197 putative ATP binding site [chemical binding]; other site 536056006198 Putative salt-induced outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG3137 536056006199 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 536056006200 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 536056006201 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 536056006202 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 536056006203 active site 536056006204 dimer interface [polypeptide binding]; other site 536056006205 motif 1; other site 536056006206 motif 2; other site 536056006207 motif 3; other site 536056006208 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 536056006209 anticodon binding site; other site 536056006210 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 536056006211 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 536056006212 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 536056006213 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 536056006214 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 536056006215 23S rRNA binding site [nucleotide binding]; other site 536056006216 L21 binding site [polypeptide binding]; other site 536056006217 L13 binding site [polypeptide binding]; other site 536056006218 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 536056006219 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 536056006220 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 536056006221 dimer interface [polypeptide binding]; other site 536056006222 motif 1; other site 536056006223 active site 536056006224 motif 2; other site 536056006225 motif 3; other site 536056006226 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 536056006227 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 536056006228 putative tRNA-binding site [nucleotide binding]; other site 536056006229 B3/4 domain; Region: B3_4; pfam03483 536056006230 tRNA synthetase B5 domain; Region: B5; smart00874 536056006231 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 536056006232 dimer interface [polypeptide binding]; other site 536056006233 motif 1; other site 536056006234 motif 3; other site 536056006235 motif 2; other site 536056006236 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 536056006237 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 536056006238 IHF dimer interface [polypeptide binding]; other site 536056006239 IHF - DNA interface [nucleotide binding]; other site 536056006240 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 536056006241 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 536056006242 ABC-ATPase subunit interface; other site 536056006243 dimer interface [polypeptide binding]; other site 536056006244 putative PBP binding regions; other site 536056006245 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 536056006246 catalytic residues [active] 536056006247 dimer interface [polypeptide binding]; other site 536056006248 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 536056006249 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 536056006250 Walker A/P-loop; other site 536056006251 ATP binding site [chemical binding]; other site 536056006252 Q-loop/lid; other site 536056006253 ABC transporter signature motif; other site 536056006254 Walker B; other site 536056006255 D-loop; other site 536056006256 H-loop/switch region; other site 536056006257 NlpC/P60 family; Region: NLPC_P60; pfam00877 536056006258 c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms]; Region: Rtn; COG2200 536056006259 Uncharacterized conserved protein [Function unknown]; Region: COG0397 536056006260 hypothetical protein; Validated; Region: PRK00029 536056006261 Hemin uptake protein [Inorganic ion transport and metabolism]; Region: HemP; COG4256 536056006262 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 536056006263 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 536056006264 PEP synthetase regulatory protein; Provisional; Region: PRK05339 536056006265 phosphoenolpyruvate synthase; Validated; Region: PRK06464 536056006266 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 536056006267 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 536056006268 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 536056006269 short chain acyl-CoA synthetase; Reviewed; Region: PRK06087 536056006270 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 536056006271 acyl-activating enzyme (AAE) consensus motif; other site 536056006272 putative AMP binding site [chemical binding]; other site 536056006273 putative active site [active] 536056006274 putative CoA binding site [chemical binding]; other site 536056006275 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 536056006276 oxidoreductase; Provisional; Region: PRK10015 536056006277 electron transfer flavoprotein subunit YdiR; Provisional; Region: PRK11916 536056006278 Electron transfer flavoprotein domain; Region: ETF; smart00893 536056006279 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 536056006280 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 536056006281 Ligand binding site [chemical binding]; other site 536056006282 Electron transfer flavoprotein domain; Region: ETF; pfam01012 536056006283 Cupin domain; Region: Cupin_2; pfam07883 536056006284 Winged helix DNA-binding domain (DUF1495); Region: DUF1495; cl01336 536056006285 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536056006286 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056006287 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 536056006288 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 536056006289 active site 536056006290 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 536056006291 Coenzyme A transferase; Region: CoA_trans; smart00882 536056006292 Coenzyme A transferase; Region: CoA_trans; cl17247 536056006293 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 536056006294 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 536056006295 active site 536056006296 catalytic residue [active] 536056006297 dimer interface [polypeptide binding]; other site 536056006298 quinate/shikimate dehydrogenase; Reviewed; Region: PRK12749 536056006299 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 536056006300 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 536056006301 shikimate binding site; other site 536056006302 NAD(P) binding site [chemical binding]; other site 536056006303 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 536056006304 putative substrate translocation pore; other site 536056006305 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 536056006306 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536056006307 putative substrate translocation pore; other site 536056006308 Domain of unknown function (DUF1870); Region: DUF1870; pfam08965 536056006309 putative inner membrane protein; Provisional; Region: PRK10983 536056006310 Domain of unknown function DUF20; Region: UPF0118; pfam01594 536056006311 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 536056006312 FAD binding domain; Region: FAD_binding_4; pfam01565 536056006313 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 536056006314 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 536056006315 CoenzymeA binding site [chemical binding]; other site 536056006316 subunit interaction site [polypeptide binding]; other site 536056006317 PHB binding site; other site 536056006318 iron-sulfur cluster assembly scaffold protein; Provisional; Region: sufA; PRK09504 536056006319 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 536056006320 putative ABC transporter; Region: ycf24; CHL00085 536056006321 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 536056006322 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 536056006323 Walker A/P-loop; other site 536056006324 ATP binding site [chemical binding]; other site 536056006325 Q-loop/lid; other site 536056006326 ABC transporter signature motif; other site 536056006327 Walker B; other site 536056006328 D-loop; other site 536056006329 H-loop/switch region; other site 536056006330 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 536056006331 FeS assembly protein SufD; Region: sufD; TIGR01981 536056006332 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 536056006333 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 536056006334 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536056006335 catalytic residue [active] 536056006336 cysteine desufuration protein SufE; Provisional; Region: PRK09296 536056006337 L,D-transpeptidase; Provisional; Region: PRK10190 536056006338 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 536056006339 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 536056006340 murein lipoprotein; Provisional; Region: PRK15396 536056006341 pyruvate kinase; Provisional; Region: PRK09206 536056006342 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 536056006343 domain interfaces; other site 536056006344 active site 536056006345 hypothetical protein; Provisional; Region: PRK10292 536056006346 hypothetical protein; Provisional; Region: PRK09898 536056006347 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 536056006348 putative oxidoreductase; Provisional; Region: PRK09849 536056006349 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 536056006350 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 536056006351 hypothetical protein; Provisional; Region: PRK09947 536056006352 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 536056006353 thiosulfate reductase cytochrome B subunit; Provisional; Region: PRK15006 536056006354 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 536056006355 hypothetical protein; Provisional; Region: PRK09946 536056006356 hypothetical protein; Provisional; Region: PRK09897 536056006357 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 536056006358 putative monooxygenase; Provisional; Region: PRK11118 536056006359 hypothetical protein; Provisional; Region: PRK09945 536056006360 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 536056006361 multidrug efflux protein; Reviewed; Region: PRK01766 536056006362 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 536056006363 cation binding site [ion binding]; other site 536056006364 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 536056006365 Lumazine binding domain; Region: Lum_binding; pfam00677 536056006366 Lumazine binding domain; Region: Lum_binding; pfam00677 536056006367 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 536056006368 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 536056006369 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 536056006370 S-adenosylmethionine binding site [chemical binding]; other site 536056006371 putative transporter; Provisional; Region: PRK11043 536056006372 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 536056006373 putative substrate translocation pore; other site 536056006374 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 536056006375 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056006376 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 536056006377 dimerization interface [polypeptide binding]; other site 536056006378 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 536056006379 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536056006380 DNA binding site [nucleotide binding] 536056006381 domain linker motif; other site 536056006382 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 536056006383 dimerization interface [polypeptide binding]; other site 536056006384 ligand binding site [chemical binding]; other site 536056006385 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 536056006386 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536056006387 putative substrate translocation pore; other site 536056006388 superoxide dismutase; Provisional; Region: PRK10543 536056006389 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 536056006390 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 536056006391 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 536056006392 NlpC/P60 family; Region: NLPC_P60; pfam00877 536056006393 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 536056006394 putative GSH binding site [chemical binding]; other site 536056006395 catalytic residues [active] 536056006396 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 536056006397 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 536056006398 ATP binding site [chemical binding]; other site 536056006399 putative Mg++ binding site [ion binding]; other site 536056006400 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 536056006401 nucleotide binding region [chemical binding]; other site 536056006402 ATP-binding site [chemical binding]; other site 536056006403 DEAD/H associated; Region: DEAD_assoc; pfam08494 536056006404 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 536056006405 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 536056006406 dimer interface [polypeptide binding]; other site 536056006407 catalytic site [active] 536056006408 putative active site [active] 536056006409 putative substrate binding site [chemical binding]; other site 536056006410 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 536056006411 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 536056006412 dimer interface [polypeptide binding]; other site 536056006413 active site 536056006414 metal binding site [ion binding]; metal-binding site 536056006415 glutathione binding site [chemical binding]; other site 536056006416 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 536056006417 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 536056006418 FMN binding site [chemical binding]; other site 536056006419 active site 536056006420 substrate binding site [chemical binding]; other site 536056006421 catalytic residue [active] 536056006422 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536056006423 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536056006424 Predicted Fe-S protein [General function prediction only]; Region: COG3313 536056006425 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 536056006426 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 536056006427 active site 536056006428 catalytic tetrad [active] 536056006429 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 536056006430 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 536056006431 E-class dimer interface [polypeptide binding]; other site 536056006432 P-class dimer interface [polypeptide binding]; other site 536056006433 active site 536056006434 Cu2+ binding site [ion binding]; other site 536056006435 Zn2+ binding site [ion binding]; other site 536056006436 Fusaric acid resistance protein family; Region: FUSC; pfam04632 536056006437 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 536056006438 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 536056006439 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536056006440 HlyD family secretion protein; Region: HlyD_3; pfam13437 536056006441 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 536056006442 transcriptional regulator SlyA; Provisional; Region: PRK03573 536056006443 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 536056006444 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 536056006445 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 536056006446 lysozyme inhibitor; Provisional; Region: PRK11372 536056006447 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 536056006448 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 536056006449 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 536056006450 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 536056006451 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 536056006452 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 536056006453 active site 536056006454 HIGH motif; other site 536056006455 dimer interface [polypeptide binding]; other site 536056006456 KMSKS motif; other site 536056006457 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 536056006458 RNA binding surface [nucleotide binding]; other site 536056006459 pyridoxamine kinase; Validated; Region: PRK05756 536056006460 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 536056006461 dimer interface [polypeptide binding]; other site 536056006462 pyridoxal binding site [chemical binding]; other site 536056006463 ATP binding site [chemical binding]; other site 536056006464 glutathionine S-transferase; Provisional; Region: PRK10542 536056006465 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 536056006466 C-terminal domain interface [polypeptide binding]; other site 536056006467 GSH binding site (G-site) [chemical binding]; other site 536056006468 dimer interface [polypeptide binding]; other site 536056006469 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 536056006470 N-terminal domain interface [polypeptide binding]; other site 536056006471 dimer interface [polypeptide binding]; other site 536056006472 substrate binding pocket (H-site) [chemical binding]; other site 536056006473 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 536056006474 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 536056006475 putative substrate translocation pore; other site 536056006476 POT family; Region: PTR2; pfam00854 536056006477 endonuclease III; Provisional; Region: PRK10702 536056006478 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 536056006479 minor groove reading motif; other site 536056006480 helix-hairpin-helix signature motif; other site 536056006481 substrate binding pocket [chemical binding]; other site 536056006482 active site 536056006483 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 536056006484 electron transport complex RsxE subunit; Provisional; Region: PRK12405 536056006485 electron transport complex protein RnfG; Validated; Region: PRK01908 536056006486 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 536056006487 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 536056006488 SLBB domain; Region: SLBB; pfam10531 536056006489 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 536056006490 electron transport complex protein RnfB; Provisional; Region: PRK05113 536056006491 Putative Fe-S cluster; Region: FeS; pfam04060 536056006492 4Fe-4S binding domain; Region: Fer4; pfam00037 536056006493 electron transport complex protein RsxA; Provisional; Region: PRK05151 536056006494 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 536056006495 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 536056006496 putative oxidoreductase; Provisional; Region: PRK11579 536056006497 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 536056006498 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 536056006499 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 536056006500 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 536056006501 active site 536056006502 purine riboside binding site [chemical binding]; other site 536056006503 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 536056006504 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 536056006505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056006506 homodimer interface [polypeptide binding]; other site 536056006507 catalytic residue [active] 536056006508 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 536056006509 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 536056006510 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 536056006511 active site turn [active] 536056006512 phosphorylation site [posttranslational modification] 536056006513 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 536056006514 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536056006515 DNA binding site [nucleotide binding] 536056006516 domain linker motif; other site 536056006517 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 536056006518 putative dimerization interface [polypeptide binding]; other site 536056006519 putative ligand binding site [chemical binding]; other site 536056006520 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 536056006521 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 536056006522 NAD binding site [chemical binding]; other site 536056006523 substrate binding site [chemical binding]; other site 536056006524 homotetramer interface [polypeptide binding]; other site 536056006525 homodimer interface [polypeptide binding]; other site 536056006526 active site 536056006527 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536056006528 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536056006529 beta-D-glucuronidase; Provisional; Region: PRK10150 536056006530 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 536056006531 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 536056006532 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 536056006533 glucuronide transporter; Provisional; Region: PRK09848 536056006534 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 536056006535 putative outer membrane porin protein; Provisional; Region: PRK11379 536056006536 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 536056006537 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 536056006538 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 536056006539 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 536056006540 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 536056006541 fumarate hydratase; Provisional; Region: PRK15389 536056006542 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 536056006543 Fumarase C-terminus; Region: Fumerase_C; pfam05683 536056006544 fumarate hydratase; Reviewed; Region: fumC; PRK00485 536056006545 Class II fumarases; Region: Fumarase_classII; cd01362 536056006546 active site 536056006547 tetramer interface [polypeptide binding]; other site 536056006548 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 536056006549 sensor protein RstB; Provisional; Region: PRK10604 536056006550 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 536056006551 dimerization interface [polypeptide binding]; other site 536056006552 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 536056006553 dimer interface [polypeptide binding]; other site 536056006554 phosphorylation site [posttranslational modification] 536056006555 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 536056006556 ATP binding site [chemical binding]; other site 536056006557 Mg2+ binding site [ion binding]; other site 536056006558 G-X-G motif; other site 536056006559 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 536056006560 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 536056006561 active site 536056006562 phosphorylation site [posttranslational modification] 536056006563 intermolecular recognition site; other site 536056006564 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 536056006565 DNA binding site [nucleotide binding] 536056006566 GlpM protein; Region: GlpM; pfam06942 536056006567 dihydromonapterin reductase; Provisional; Region: PRK06483 536056006568 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 536056006569 NADP binding site [chemical binding]; other site 536056006570 substrate binding pocket [chemical binding]; other site 536056006571 active site 536056006572 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 536056006573 Spore germination protein; Region: Spore_permease; cl17796 536056006574 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 536056006575 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 536056006576 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 536056006577 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 536056006578 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 536056006579 ligand binding site [chemical binding]; other site 536056006580 homodimer interface [polypeptide binding]; other site 536056006581 NAD(P) binding site [chemical binding]; other site 536056006582 trimer interface B [polypeptide binding]; other site 536056006583 trimer interface A [polypeptide binding]; other site 536056006584 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 536056006585 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 536056006586 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 536056006587 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; PRK12287 536056006588 Domain of unknown function DUF20; Region: UPF0118; pfam01594 536056006589 multidrug efflux system protein MdtJ; Provisional; Region: PRK10452 536056006590 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 536056006591 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 536056006592 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 536056006593 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 536056006594 putative substrate translocation pore; other site 536056006595 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 536056006596 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056006597 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 536056006598 dimerization interface [polypeptide binding]; other site 536056006599 substrate binding pocket [chemical binding]; other site 536056006600 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 536056006601 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 536056006602 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 536056006603 nucleotide binding site [chemical binding]; other site 536056006604 putative dithiobiotin synthetase; Provisional; Region: PRK12374 536056006605 AAA domain; Region: AAA_26; pfam13500 536056006606 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 536056006607 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 536056006608 Cl- selectivity filter; other site 536056006609 Cl- binding residues [ion binding]; other site 536056006610 pore gating glutamate residue; other site 536056006611 dimer interface [polypeptide binding]; other site 536056006612 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 536056006613 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 536056006614 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 536056006615 4Fe-4S binding domain; Region: Fer4; cl02805 536056006616 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 536056006617 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 536056006618 putative [Fe4-S4] binding site [ion binding]; other site 536056006619 putative molybdopterin cofactor binding site [chemical binding]; other site 536056006620 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 536056006621 putative molybdopterin cofactor binding site; other site 536056006622 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 536056006623 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 536056006624 putative [Fe4-S4] binding site [ion binding]; other site 536056006625 putative molybdopterin cofactor binding site [chemical binding]; other site 536056006626 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 536056006627 putative molybdopterin cofactor binding site; other site 536056006628 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 536056006629 Uncharacterized protein family (UPF0257); Region: UPF0257; pfam06788 536056006630 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 536056006631 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536056006632 Coenzyme A binding pocket [chemical binding]; other site 536056006633 hypothetical protein; Provisional; Region: PRK13659 536056006634 hypothetical protein; Provisional; Region: PRK02237 536056006635 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 536056006636 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 536056006637 putative active site pocket [active] 536056006638 putative metal binding site [ion binding]; other site 536056006639 putative oxidoreductase; Provisional; Region: PRK10083 536056006640 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 536056006641 putative NAD(P) binding site [chemical binding]; other site 536056006642 catalytic Zn binding site [ion binding]; other site 536056006643 structural Zn binding site [ion binding]; other site 536056006644 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 536056006645 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 536056006646 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 536056006647 phiCTX phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various phage and bacterial integrases, including those similar to phage integrases: Bordetella and...; Region: INT_phiCTX_C; cd01191 536056006648 Int/Topo IB signature motif; other site 536056006649 Integrase core domain; Region: rve; pfam00665 536056006650 Integrase core domain; Region: rve_3; pfam13683 536056006651 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 536056006652 DicB protein; Region: DicB; pfam05358 536056006653 Protein of unknown function (DUF1391); Region: DUF1391; pfam07151 536056006654 transcriptional repressor DicA; Reviewed; Region: PRK09706 536056006655 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 536056006656 non-specific DNA binding site [nucleotide binding]; other site 536056006657 salt bridge; other site 536056006658 sequence-specific DNA binding site [nucleotide binding]; other site 536056006659 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 536056006660 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 536056006661 bifunctional antitoxin/transcriptional repressor RelB; Provisional; Region: PRK11235 536056006662 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 536056006663 Hok/gef family; Region: HOK_GEF; pfam01848 536056006664 Protein of unknown function (DUF968); Region: DUF968; pfam06147 536056006665 Antitermination protein; Region: Antiterm; pfam03589 536056006666 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 536056006667 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 536056006668 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 536056006669 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 536056006670 DNA-binding site [nucleotide binding]; DNA binding site 536056006671 RNA-binding motif; other site 536056006672 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 536056006673 DNA-binding site [nucleotide binding]; DNA binding site 536056006674 RNA-binding motif; other site 536056006675 Lysis protein S; Region: Lysis_S; pfam04971 536056006676 Protein of unknown function (DUF1327); Region: DUF1327; pfam07041 536056006677 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 536056006678 catalytic residues [active] 536056006679 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 536056006680 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 536056006681 DNA-binding site [nucleotide binding]; DNA binding site 536056006682 RNA-binding motif; other site 536056006683 GnsA/GnsB family; Region: GnsAB; pfam08178 536056006684 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 536056006685 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 536056006686 Phage Tail Collar Domain; Region: Collar; pfam07484 536056006687 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 536056006688 multiple promoter invertase; Provisional; Region: mpi; PRK13413 536056006689 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 536056006690 catalytic residues [active] 536056006691 catalytic nucleophile [active] 536056006692 Presynaptic Site I dimer interface [polypeptide binding]; other site 536056006693 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 536056006694 Synaptic Flat tetramer interface [polypeptide binding]; other site 536056006695 Synaptic Site I dimer interface [polypeptide binding]; other site 536056006696 DNA binding site [nucleotide binding] 536056006697 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 536056006698 DNA-binding interface [nucleotide binding]; DNA binding site 536056006699 metabolite-proton symporter; Region: 2A0106; TIGR00883 536056006700 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 536056006701 putative substrate translocation pore; other site 536056006702 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 536056006703 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 536056006704 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 536056006705 putative selenium-binding protein YdfZ; Region: YdfZ_fam; TIGR03318 536056006706 Transcriptional regulators [Transcription]; Region: GntR; COG1802 536056006707 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056006708 DNA-binding site [nucleotide binding]; DNA binding site 536056006709 FCD domain; Region: FCD; pfam07729 536056006710 malonic semialdehyde reductase; Provisional; Region: PRK10538 536056006711 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 536056006712 putative NAD(P) binding site [chemical binding]; other site 536056006713 homodimer interface [polypeptide binding]; other site 536056006714 homotetramer interface [polypeptide binding]; other site 536056006715 active site 536056006716 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 536056006717 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 536056006718 active site 536056006719 Zn binding site [ion binding]; other site 536056006720 hypothetical protein; Validated; Region: PRK03657 536056006721 hypothetical protein; Provisional; Region: PRK10053 536056006722 diguanylate cyclase; Provisional; Region: PRK09894 536056006723 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 536056006724 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536056006725 metal binding site [ion binding]; metal-binding site 536056006726 active site 536056006727 I-site; other site 536056006728 putative transporter; Provisional; Region: PRK10054 536056006729 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 536056006730 putative substrate translocation pore; other site 536056006731 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 536056006732 EamA-like transporter family; Region: EamA; pfam00892 536056006733 EamA-like transporter family; Region: EamA; pfam00892 536056006734 hypothetical protein; Provisional; Region: PRK10106 536056006735 DNA-binding transcriptional activator MarA; Provisional; Region: PRK11511 536056006736 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056006737 DNA-binding transcriptional repressor MarR; Provisional; Region: PRK11512 536056006738 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 536056006739 inner membrane protein; Provisional; Region: PRK10995 536056006740 putative arabinose transporter; Provisional; Region: PRK03545 536056006741 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 536056006742 putative substrate translocation pore; other site 536056006743 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536056006744 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056006745 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 536056006746 putative dimerization interface [polypeptide binding]; other site 536056006747 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 536056006748 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 536056006749 NAD(P) binding site [chemical binding]; other site 536056006750 catalytic residues [active] 536056006751 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 536056006752 glutaminase; Provisional; Region: PRK00971 536056006753 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 536056006754 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536056006755 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536056006756 metal binding site [ion binding]; metal-binding site 536056006757 active site 536056006758 I-site; other site 536056006759 altronate oxidoreductase; Provisional; Region: PRK03643 536056006760 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 536056006761 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 536056006762 Predicted membrane protein [Function unknown]; Region: COG3781 536056006763 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 536056006764 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 536056006765 S-adenosylmethionine binding site [chemical binding]; other site 536056006766 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 536056006767 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 536056006768 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 536056006769 putative active site; other site 536056006770 catalytic residue [active] 536056006771 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 536056006772 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 536056006773 ligand binding site [chemical binding]; other site 536056006774 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536056006775 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 536056006776 TM-ABC transporter signature motif; other site 536056006777 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 536056006778 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536056006779 TM-ABC transporter signature motif; other site 536056006780 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional; Region: PRK15439 536056006781 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 536056006782 Walker A/P-loop; other site 536056006783 ATP binding site [chemical binding]; other site 536056006784 Q-loop/lid; other site 536056006785 ABC transporter signature motif; other site 536056006786 Walker B; other site 536056006787 D-loop; other site 536056006788 H-loop/switch region; other site 536056006789 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 536056006790 transcriptional regulator LsrR; Provisional; Region: PRK15418 536056006791 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 536056006792 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 536056006793 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 536056006794 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 536056006795 putative N- and C-terminal domain interface [polypeptide binding]; other site 536056006796 putative active site [active] 536056006797 putative MgATP binding site [chemical binding]; other site 536056006798 catalytic site [active] 536056006799 metal binding site [ion binding]; metal-binding site 536056006800 putative carbohydrate binding site [chemical binding]; other site 536056006801 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536056006802 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 536056006803 non-specific DNA binding site [nucleotide binding]; other site 536056006804 salt bridge; other site 536056006805 sequence-specific DNA binding site [nucleotide binding]; other site 536056006806 HipA N-terminal domain; Region: Couple_hipA; pfam13657 536056006807 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 536056006808 HipA-like N-terminal domain; Region: HipA_N; pfam07805 536056006809 HipA-like C-terminal domain; Region: HipA_C; pfam07804 536056006810 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 536056006811 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 536056006812 PapC C-terminal domain; Region: PapC_C; pfam13953 536056006813 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 536056006814 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 536056006815 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cd10466 536056006816 mannosyl binding site [chemical binding]; other site 536056006817 Fimbrial protein; Region: Fimbrial; pfam00419 536056006818 putative oxidoreductase; Provisional; Region: PRK09939 536056006819 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 536056006820 putative molybdopterin cofactor binding site [chemical binding]; other site 536056006821 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 536056006822 putative molybdopterin cofactor binding site; other site 536056006823 transcriptional regulator YdeO; Provisional; Region: PRK09940 536056006824 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056006825 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 536056006826 Sulfatase; Region: Sulfatase; pfam00884 536056006827 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 536056006828 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 536056006829 FeS/SAM binding site; other site 536056006830 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 536056006831 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 536056006832 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 536056006833 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 536056006834 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 536056006835 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 536056006836 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 536056006837 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 536056006838 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 536056006839 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 536056006840 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 536056006841 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 536056006842 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056006843 catalytic residue [active] 536056006844 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 536056006845 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 536056006846 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 536056006847 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 536056006848 heme-binding site [chemical binding]; other site 536056006849 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536056006850 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536056006851 metal binding site [ion binding]; metal-binding site 536056006852 active site 536056006853 I-site; other site 536056006854 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 536056006855 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 536056006856 putative active site [active] 536056006857 heme pocket [chemical binding]; other site 536056006858 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 536056006859 putative active site [active] 536056006860 heme pocket [chemical binding]; other site 536056006861 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536056006862 metal binding site [ion binding]; metal-binding site 536056006863 active site 536056006864 I-site; other site 536056006865 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 536056006866 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 536056006867 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 536056006868 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 536056006869 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 536056006870 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 536056006871 dimer interface [polypeptide binding]; other site 536056006872 conserved gate region; other site 536056006873 putative PBP binding loops; other site 536056006874 ABC-ATPase subunit interface; other site 536056006875 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 536056006876 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 536056006877 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 536056006878 dimer interface [polypeptide binding]; other site 536056006879 conserved gate region; other site 536056006880 putative PBP binding loops; other site 536056006881 ABC-ATPase subunit interface; other site 536056006882 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 536056006883 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536056006884 Walker A/P-loop; other site 536056006885 ATP binding site [chemical binding]; other site 536056006886 Q-loop/lid; other site 536056006887 ABC transporter signature motif; other site 536056006888 Walker B; other site 536056006889 D-loop; other site 536056006890 H-loop/switch region; other site 536056006891 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 536056006892 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 536056006893 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536056006894 Walker A/P-loop; other site 536056006895 ATP binding site [chemical binding]; other site 536056006896 Q-loop/lid; other site 536056006897 ABC transporter signature motif; other site 536056006898 Walker B; other site 536056006899 D-loop; other site 536056006900 H-loop/switch region; other site 536056006901 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 536056006902 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 536056006903 Putative biofilm-dependent modulation protein; Region: BDM; cl11581 536056006904 30S ribosomal subunit S22; Reviewed; Region: rpsV; PRK10057 536056006905 malate dehydrogenase; Provisional; Region: PRK13529 536056006906 Malic enzyme, N-terminal domain; Region: malic; pfam00390 536056006907 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 536056006908 NAD(P) binding site [chemical binding]; other site 536056006909 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 536056006910 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 536056006911 NAD binding site [chemical binding]; other site 536056006912 substrate binding site [chemical binding]; other site 536056006913 catalytic Zn binding site [ion binding]; other site 536056006914 tetramer interface [polypeptide binding]; other site 536056006915 structural Zn binding site [ion binding]; other site 536056006916 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 536056006917 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 536056006918 non-specific DNA binding site [nucleotide binding]; other site 536056006919 salt bridge; other site 536056006920 sequence-specific DNA binding site [nucleotide binding]; other site 536056006921 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 536056006922 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 536056006923 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 536056006924 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 536056006925 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 536056006926 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 536056006927 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 536056006928 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 536056006929 molybdopterin cofactor binding site; other site 536056006930 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 536056006931 aromatic amino acid exporter; Provisional; Region: PRK11689 536056006932 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 536056006933 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 536056006934 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 536056006935 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 536056006936 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 536056006937 [4Fe-4S] binding site [ion binding]; other site 536056006938 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 536056006939 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 536056006940 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 536056006941 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 536056006942 molybdopterin cofactor binding site; other site 536056006943 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 536056006944 nitrate reductase 2 subunit delta; Provisional; Region: PRK15054 536056006945 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 536056006946 hypothetical protein; Provisional; Region: PRK10281 536056006947 N-hydroxyarylamine O-acetyltransferase; Provisional; Region: PRK15047 536056006948 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 536056006949 4-oxalocrotonate tautomerase; Provisional; Region: PRK01271 536056006950 active site 1 [active] 536056006951 dimer interface [polypeptide binding]; other site 536056006952 hexamer interface [polypeptide binding]; other site 536056006953 active site 2 [active] 536056006954 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 536056006955 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 536056006956 Transposase [DNA replication, recombination, and repair]; Region: COG5433 536056006957 Transposase [DNA replication, recombination, and repair]; Region: COG5433 536056006958 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 536056006959 RHS protein; Region: RHS; pfam03527 536056006960 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 536056006961 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 536056006962 C-terminal domain interface [polypeptide binding]; other site 536056006963 GSH binding site (G-site) [chemical binding]; other site 536056006964 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 536056006965 dimer interface [polypeptide binding]; other site 536056006966 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 536056006967 dimer interface [polypeptide binding]; other site 536056006968 N-terminal domain interface [polypeptide binding]; other site 536056006969 substrate binding pocket (H-site) [chemical binding]; other site 536056006970 L-asparagine permease; Provisional; Region: PRK15049 536056006971 PQQ-like domain; Region: PQQ_2; pfam13360 536056006972 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 536056006973 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 536056006974 N-terminal plug; other site 536056006975 ligand-binding site [chemical binding]; other site 536056006976 colanic acid/biofilm transcriptional regulator; Provisional; Region: PRK11414 536056006977 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056006978 DNA-binding site [nucleotide binding]; DNA binding site 536056006979 FCD domain; Region: FCD; pfam07729 536056006980 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 536056006981 Prostaglandin dehydrogenases; Region: PGDH; cd05288 536056006982 NAD(P) binding site [chemical binding]; other site 536056006983 substrate binding site [chemical binding]; other site 536056006984 dimer interface [polypeptide binding]; other site 536056006985 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 536056006986 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 536056006987 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 536056006988 Protein of unknown function (DUF2526); Region: DUF2526; pfam10735 536056006989 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 536056006990 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 536056006991 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 536056006992 tetrameric interface [polypeptide binding]; other site 536056006993 NAD binding site [chemical binding]; other site 536056006994 catalytic residues [active] 536056006995 substrate binding site [chemical binding]; other site 536056006996 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 536056006997 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 536056006998 ABC-ATPase subunit interface; other site 536056006999 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 536056007000 dimer interface [polypeptide binding]; other site 536056007001 conserved gate region; other site 536056007002 putative PBP binding loops; other site 536056007003 ABC-ATPase subunit interface; other site 536056007004 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 536056007005 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056007006 Walker A/P-loop; other site 536056007007 ATP binding site [chemical binding]; other site 536056007008 Q-loop/lid; other site 536056007009 ABC transporter signature motif; other site 536056007010 Walker B; other site 536056007011 D-loop; other site 536056007012 H-loop/switch region; other site 536056007013 TOBE domain; Region: TOBE_2; pfam08402 536056007014 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 536056007015 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 536056007016 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 536056007017 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056007018 DNA-binding site [nucleotide binding]; DNA binding site 536056007019 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 536056007020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056007021 homodimer interface [polypeptide binding]; other site 536056007022 catalytic residue [active] 536056007023 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 536056007024 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 536056007025 sequence-specific DNA binding site [nucleotide binding]; other site 536056007026 salt bridge; other site 536056007027 YcfA-like protein; Region: YcfA; pfam07927 536056007028 Protein of unknown function (DUF2554); Region: DUF2554; pfam10829 536056007029 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 536056007030 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 536056007031 Peptidase family U32; Region: Peptidase_U32; pfam01136 536056007032 Collagenase; Region: DUF3656; pfam12392 536056007033 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 536056007034 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 536056007035 non-specific DNA binding site [nucleotide binding]; other site 536056007036 salt bridge; other site 536056007037 sequence-specific DNA binding site [nucleotide binding]; other site 536056007038 Cupin domain; Region: Cupin_2; pfam07883 536056007039 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 536056007040 benzoate transporter; Region: benE; TIGR00843 536056007041 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 536056007042 Probable transposase; Region: OrfB_IS605; pfam01385 536056007043 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 536056007044 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 536056007045 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 536056007046 tellurite resistance protein TehB; Provisional; Region: PRK11207 536056007047 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 536056007048 S-adenosylmethionine binding site [chemical binding]; other site 536056007049 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 536056007050 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 536056007051 gating phenylalanine in ion channel; other site 536056007052 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; cd00208 536056007053 putative trimer interface [polypeptide binding]; other site 536056007054 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 536056007055 putative CoA binding site [chemical binding]; other site 536056007056 putative trimer interface [polypeptide binding]; other site 536056007057 putative CoA binding site [chemical binding]; other site 536056007058 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 536056007059 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536056007060 Coenzyme A binding pocket [chemical binding]; other site 536056007061 hypothetical protein; Provisional; Region: PRK11415 536056007062 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 536056007063 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 536056007064 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 536056007065 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 536056007066 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 536056007067 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056007068 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 536056007069 dimerization interface [polypeptide binding]; other site 536056007070 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 536056007071 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 536056007072 dimer interface [polypeptide binding]; other site 536056007073 ligand binding site [chemical binding]; other site 536056007074 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 536056007075 dimerization interface [polypeptide binding]; other site 536056007076 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536056007077 dimer interface [polypeptide binding]; other site 536056007078 putative CheW interface [polypeptide binding]; other site 536056007079 hypothetical protein; Provisional; Region: PRK10040 536056007080 cytochrome b561; Provisional; Region: PRK11513 536056007081 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 536056007082 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 536056007083 NAD binding site [chemical binding]; other site 536056007084 catalytic residues [active] 536056007085 substrate binding site [chemical binding]; other site 536056007086 Uncharacterized conserved protein [Function unknown]; Region: COG1434 536056007087 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 536056007088 putative active site [active] 536056007089 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 536056007090 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 536056007091 ATP binding site [chemical binding]; other site 536056007092 putative Mg++ binding site [ion binding]; other site 536056007093 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 536056007094 nucleotide binding region [chemical binding]; other site 536056007095 ATP-binding site [chemical binding]; other site 536056007096 Helicase associated domain (HA2); Region: HA2; pfam04408 536056007097 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 536056007098 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 536056007099 azoreductase; Reviewed; Region: PRK00170 536056007100 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 536056007101 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 536056007102 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 536056007103 active site 536056007104 Dual specificity phosphatase, catalytic domain; Region: DSPc; smart00195 536056007105 active site 536056007106 catalytic residues [active] 536056007107 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 536056007108 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 536056007109 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 536056007110 S-adenosylmethionine binding site [chemical binding]; other site 536056007111 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 536056007112 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 536056007113 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 536056007114 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 536056007115 Protein of unknown function (DUF2773); Region: DUF2773; pfam10971 536056007116 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 536056007117 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 536056007118 active site 536056007119 catalytic tetrad [active] 536056007120 Autotransporter beta-domain; Region: Autotransporter; pfam03797 536056007121 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 536056007122 Helix-turn-helix domain; Region: HTH_38; pfam13936 536056007123 Integrase core domain; Region: rve; pfam00665 536056007124 IS2 repressor TnpA; Reviewed; Region: PRK09413 536056007125 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 536056007126 IS2 transposase TnpB; Reviewed; Region: PRK09409 536056007127 HTH-like domain; Region: HTH_21; pfam13276 536056007128 Integrase core domain; Region: rve; pfam00665 536056007129 Integrase core domain; Region: rve_3; pfam13683 536056007130 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 536056007131 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 536056007132 putative trimer interface [polypeptide binding]; other site 536056007133 putative metal binding site [ion binding]; other site 536056007134 PaaX-like protein; Region: PaaX; pfam07848 536056007135 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 536056007136 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 536056007137 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 536056007138 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 536056007139 active site 536056007140 AMP binding site [chemical binding]; other site 536056007141 homodimer interface [polypeptide binding]; other site 536056007142 acyl-activating enzyme (AAE) consensus motif; other site 536056007143 CoA binding site [chemical binding]; other site 536056007144 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 536056007145 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 536056007146 dimer interface [polypeptide binding]; other site 536056007147 active site 536056007148 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 536056007149 CoenzymeA binding site [chemical binding]; other site 536056007150 subunit interaction site [polypeptide binding]; other site 536056007151 PHB binding site; other site 536056007152 3-hydroxyacyl-CoA dehydrogenase PaaC; Region: PaaC-3OHAcCoADH; TIGR02279 536056007153 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 536056007154 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 536056007155 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 536056007156 enoyl-CoA hydratase; Provisional; Region: PRK08140 536056007157 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 536056007158 substrate binding site [chemical binding]; other site 536056007159 oxyanion hole (OAH) forming residues; other site 536056007160 trimer interface [polypeptide binding]; other site 536056007161 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 536056007162 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 536056007163 substrate binding site [chemical binding]; other site 536056007164 oxyanion hole (OAH) forming residues; other site 536056007165 trimer interface [polypeptide binding]; other site 536056007166 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 536056007167 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 536056007168 FAD binding pocket [chemical binding]; other site 536056007169 FAD binding motif [chemical binding]; other site 536056007170 phosphate binding motif [ion binding]; other site 536056007171 beta-alpha-beta structure motif; other site 536056007172 NAD(p) ribose binding residues [chemical binding]; other site 536056007173 NAD binding pocket [chemical binding]; other site 536056007174 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 536056007175 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 536056007176 catalytic loop [active] 536056007177 iron binding site [ion binding]; other site 536056007178 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 536056007179 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 536056007180 phenylacetate-CoA oxygenase, PaaI subunit; Region: PA_CoA_Oxy3; TIGR02158 536056007181 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 536056007182 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 536056007183 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 536056007184 substrate binding site [chemical binding]; other site 536056007185 dimer interface [polypeptide binding]; other site 536056007186 NADP binding site [chemical binding]; other site 536056007187 catalytic residues [active] 536056007188 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 536056007189 substrate binding site [chemical binding]; other site 536056007190 tyramine oxidase; Provisional; Region: tynA; PRK14696 536056007191 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 536056007192 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 536056007193 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 536056007194 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 536056007195 Escherichia coli NAD+-dependent phenylacetaldehyde dehydrogenase PadA-like; Region: ALDH_PADH_NahF; cd07113 536056007196 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 536056007197 NAD(P) binding site [chemical binding]; other site 536056007198 catalytic residues [active] 536056007199 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 536056007200 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056007201 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 536056007202 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 536056007203 hypothetical protein; Provisional; Region: PRK10695 536056007204 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 536056007205 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 536056007206 putative ligand binding site [chemical binding]; other site 536056007207 putative NAD binding site [chemical binding]; other site 536056007208 catalytic site [active] 536056007209 heat-inducible protein; Provisional; Region: PRK10449 536056007210 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 536056007211 Domain of unknown function (DUF333); Region: DUF333; pfam03891 536056007212 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 536056007213 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 536056007214 dimer interface [polypeptide binding]; other site 536056007215 PYR/PP interface [polypeptide binding]; other site 536056007216 TPP binding site [chemical binding]; other site 536056007217 substrate binding site [chemical binding]; other site 536056007218 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 536056007219 Domain of unknown function; Region: EKR; smart00890 536056007220 4Fe-4S binding domain; Region: Fer4_6; pfam12837 536056007221 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 536056007222 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 536056007223 TPP-binding site [chemical binding]; other site 536056007224 dimer interface [polypeptide binding]; other site 536056007225 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 536056007226 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 536056007227 trimer interface [polypeptide binding]; other site 536056007228 eyelet of channel; other site 536056007229 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 536056007230 Ligand Binding Site [chemical binding]; other site 536056007231 multiple promoter invertase; Provisional; Region: mpi; PRK13413 536056007232 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 536056007233 catalytic residues [active] 536056007234 catalytic nucleophile [active] 536056007235 Presynaptic Site I dimer interface [polypeptide binding]; other site 536056007236 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 536056007237 Synaptic Flat tetramer interface [polypeptide binding]; other site 536056007238 Synaptic Site I dimer interface [polypeptide binding]; other site 536056007239 DNA binding site [nucleotide binding] 536056007240 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 536056007241 DNA-binding interface [nucleotide binding]; DNA binding site 536056007242 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 536056007243 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 536056007244 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 536056007245 Phage Tail Collar Domain; Region: Collar; pfam07484 536056007246 Transposase domain (DUF772); Region: DUF772; pfam05598 536056007247 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 536056007248 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 536056007249 Phage-related minor tail protein [Function unknown]; Region: COG5281 536056007250 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 536056007251 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 536056007252 ParB-like nuclease domain; Region: ParBc; pfam02195 536056007253 Cation transport protein; Region: TrkH; cl17365 536056007254 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 536056007255 putative replication protein; Provisional; Region: PRK12377 536056007256 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 536056007257 Walker A motif; other site 536056007258 ATP binding site [chemical binding]; other site 536056007259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3756 536056007260 primosomal protein DnaI; Provisional; Region: PRK02854 536056007261 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 536056007262 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 536056007263 sequence-specific DNA binding site [nucleotide binding]; other site 536056007264 salt bridge; other site 536056007265 Protein of unknown function (DUF1391); Region: DUF1391; pfam07151 536056007266 Superinfection exclusion protein B; Region: SieB; pfam14163 536056007267 FtsZ inhibitor protein; Reviewed; Region: kil; PRK11354 536056007268 hypothetical protein; Reviewed; Region: PRK09790 536056007269 exonuclease VIII; Reviewed; Region: PRK09709 536056007270 Enterobacterial exodeoxyribonuclease VIII; Region: Exonuc_VIII; pfam06630 536056007271 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 536056007272 recombination and repair protein RecT; Reviewed; Region: recT; PRK09846 536056007273 hypothetical protein; Provisional; Region: PRK09750 536056007274 Putative excisionase (DUF1233); Region: DUF1233; pfam06806 536056007275 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 536056007276 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 536056007277 phiCTX phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various phage and bacterial integrases, including those similar to phage integrases: Bordetella and...; Region: INT_phiCTX_C; cd01191 536056007278 Int/Topo IB signature motif; other site 536056007279 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 536056007280 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 536056007281 Ligand Binding Site [chemical binding]; other site 536056007282 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 536056007283 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 536056007284 ATP binding site [chemical binding]; other site 536056007285 Mg++ binding site [ion binding]; other site 536056007286 motif III; other site 536056007287 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 536056007288 nucleotide binding region [chemical binding]; other site 536056007289 ATP-binding site [chemical binding]; other site 536056007290 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 536056007291 putative RNA binding site [nucleotide binding]; other site 536056007292 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 536056007293 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 536056007294 Cl binding site [ion binding]; other site 536056007295 oligomer interface [polypeptide binding]; other site 536056007296 PAS domain S-box; Region: sensory_box; TIGR00229 536056007297 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 536056007298 putative active site [active] 536056007299 heme pocket [chemical binding]; other site 536056007300 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536056007301 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536056007302 metal binding site [ion binding]; metal-binding site 536056007303 active site 536056007304 I-site; other site 536056007305 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 536056007306 Smr domain; Region: Smr; pfam01713 536056007307 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 536056007308 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056007309 The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold; Region: PBP2_TdcA; cd08418 536056007310 putative substrate binding pocket [chemical binding]; other site 536056007311 putative dimerization interface [polypeptide binding]; other site 536056007312 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 536056007313 amidohydrolase; Region: amidohydrolases; TIGR01891 536056007314 putative metal binding site [ion binding]; other site 536056007315 dimer interface [polypeptide binding]; other site 536056007316 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 536056007317 amidohydrolase; Region: amidohydrolases; TIGR01891 536056007318 putative metal binding site [ion binding]; other site 536056007319 putative aminobenzoyl-glutamate transporter; Provisional; Region: abgT; PRK11339 536056007320 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 536056007321 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 536056007322 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 536056007323 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 536056007324 DNA binding site [nucleotide binding] 536056007325 active site 536056007326 Transposase domain (DUF772); Region: DUF772; pfam05598 536056007327 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 536056007328 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 536056007329 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 536056007330 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 536056007331 ligand binding site [chemical binding]; other site 536056007332 flexible hinge region; other site 536056007333 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 536056007334 putative switch regulator; other site 536056007335 non-specific DNA interactions [nucleotide binding]; other site 536056007336 DNA binding site [nucleotide binding] 536056007337 sequence specific DNA binding site [nucleotide binding]; other site 536056007338 putative cAMP binding site [chemical binding]; other site 536056007339 universal stress protein UspE; Provisional; Region: PRK11175 536056007340 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 536056007341 Ligand Binding Site [chemical binding]; other site 536056007342 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 536056007343 Ligand Binding Site [chemical binding]; other site 536056007344 Protein of unknown function (DUF2534); Region: DUF2534; pfam10749 536056007345 Transposase domain (DUF772); Region: DUF772; pfam05598 536056007346 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 536056007347 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 536056007348 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 536056007349 Mechanosensitive ion channel; Region: MS_channel; pfam00924 536056007350 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 536056007351 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 536056007352 peptide binding site [polypeptide binding]; other site 536056007353 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536056007354 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056007355 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 536056007356 putative effector binding pocket; other site 536056007357 putative dimerization interface [polypeptide binding]; other site 536056007358 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 536056007359 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 536056007360 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536056007361 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 536056007362 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 536056007363 putative active site [active] 536056007364 Zn binding site [ion binding]; other site 536056007365 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 536056007366 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 536056007367 active site 536056007368 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 536056007369 dimer interface [polypeptide binding]; other site 536056007370 catalytic triad [active] 536056007371 peroxidatic and resolving cysteines [active] 536056007372 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 536056007373 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 536056007374 putative aromatic amino acid binding site; other site 536056007375 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 536056007376 Walker A motif; other site 536056007377 ATP binding site [chemical binding]; other site 536056007378 Walker B motif; other site 536056007379 arginine finger; other site 536056007380 hypothetical protein; Provisional; Region: PRK05415 536056007381 TIGR01620 family protein; Region: hyp_HI0043 536056007382 Predicted ATPase [General function prediction only]; Region: COG3106 536056007383 Transcriptional regulators [Transcription]; Region: PurR; COG1609 536056007384 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536056007385 DNA binding site [nucleotide binding] 536056007386 domain linker motif; other site 536056007387 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 536056007388 putative dimerization interface [polypeptide binding]; other site 536056007389 putative ligand binding site [chemical binding]; other site 536056007390 Outer membrane protein G (OmpG); Region: Porin_OmpG; pfam09381 536056007391 beta-phosphoglucomutase; Region: bPGM; TIGR01990 536056007392 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 536056007393 motif II; other site 536056007394 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 536056007395 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 536056007396 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 536056007397 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 536056007398 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 536056007399 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 536056007400 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 536056007401 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 536056007402 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 536056007403 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 536056007404 putative NAD(P) binding site [chemical binding]; other site 536056007405 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 536056007406 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 536056007407 dimer interface [polypeptide binding]; other site 536056007408 conserved gate region; other site 536056007409 putative PBP binding loops; other site 536056007410 ABC-ATPase subunit interface; other site 536056007411 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 536056007412 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 536056007413 dimer interface [polypeptide binding]; other site 536056007414 conserved gate region; other site 536056007415 putative PBP binding loops; other site 536056007416 ABC-ATPase subunit interface; other site 536056007417 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 536056007418 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 536056007419 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 536056007420 sucrose phosphorylase; Provisional; Region: PRK13840 536056007421 active site 536056007422 homodimer interface [polypeptide binding]; other site 536056007423 catalytic site [active] 536056007424 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 536056007425 active site residue [active] 536056007426 peripheral inner membrane phage-shock protein; Provisional; Region: PRK10497 536056007427 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 536056007428 phage shock protein C; Region: phageshock_pspC; TIGR02978 536056007429 phage shock protein B; Provisional; Region: pspB; PRK09458 536056007430 phage shock protein PspA; Provisional; Region: PRK10698 536056007431 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 536056007432 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 536056007433 Walker A motif; other site 536056007434 ATP binding site [chemical binding]; other site 536056007435 Walker B motif; other site 536056007436 arginine finger; other site 536056007437 4-aminobutyrate transaminase; Provisional; Region: PRK09792 536056007438 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 536056007439 inhibitor-cofactor binding pocket; inhibition site 536056007440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056007441 catalytic residue [active] 536056007442 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 536056007443 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 536056007444 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 536056007445 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 536056007446 NAD(P) binding site [chemical binding]; other site 536056007447 catalytic residues [active] 536056007448 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 536056007449 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 536056007450 non-specific DNA binding site [nucleotide binding]; other site 536056007451 salt bridge; other site 536056007452 sequence-specific DNA binding site [nucleotide binding]; other site 536056007453 Cupin domain; Region: Cupin_2; pfam07883 536056007454 gamma-glutamyl-gamma-aminobutyrate hydrolase; Provisional; Region: puuD; PRK11366 536056007455 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 536056007456 catalytic triad [active] 536056007457 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 536056007458 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 536056007459 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 536056007460 Protein of unknown function (DUF2543); Region: DUF2543; pfam10820 536056007461 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 536056007462 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 536056007463 peptide binding site [polypeptide binding]; other site 536056007464 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 536056007465 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 536056007466 dimer interface [polypeptide binding]; other site 536056007467 conserved gate region; other site 536056007468 putative PBP binding loops; other site 536056007469 ABC-ATPase subunit interface; other site 536056007470 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 536056007471 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 536056007472 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 536056007473 dimer interface [polypeptide binding]; other site 536056007474 conserved gate region; other site 536056007475 putative PBP binding loops; other site 536056007476 ABC-ATPase subunit interface; other site 536056007477 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 536056007478 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536056007479 Walker A/P-loop; other site 536056007480 ATP binding site [chemical binding]; other site 536056007481 Q-loop/lid; other site 536056007482 ABC transporter signature motif; other site 536056007483 Walker B; other site 536056007484 D-loop; other site 536056007485 H-loop/switch region; other site 536056007486 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 536056007487 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 536056007488 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536056007489 Walker A/P-loop; other site 536056007490 ATP binding site [chemical binding]; other site 536056007491 Q-loop/lid; other site 536056007492 ABC transporter signature motif; other site 536056007493 Walker B; other site 536056007494 D-loop; other site 536056007495 H-loop/switch region; other site 536056007496 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 536056007497 putative active site [active] 536056007498 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 536056007499 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 536056007500 NAD binding site [chemical binding]; other site 536056007501 homotetramer interface [polypeptide binding]; other site 536056007502 homodimer interface [polypeptide binding]; other site 536056007503 substrate binding site [chemical binding]; other site 536056007504 active site 536056007505 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950 536056007506 Uncharacterized conserved protein [Function unknown]; Region: COG2128 536056007507 exoribonuclease II; Provisional; Region: PRK05054 536056007508 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 536056007509 RNB domain; Region: RNB; pfam00773 536056007510 S1 RNA binding domain; Region: S1; pfam00575 536056007511 RNase II stability modulator; Provisional; Region: PRK10060 536056007512 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 536056007513 putative active site [active] 536056007514 heme pocket [chemical binding]; other site 536056007515 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536056007516 metal binding site [ion binding]; metal-binding site 536056007517 active site 536056007518 I-site; other site 536056007519 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 536056007520 hypothetical protein; Provisional; Region: PRK13658 536056007521 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 536056007522 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 536056007523 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 536056007524 lipoprotein; Provisional; Region: PRK10540 536056007525 translation initiation factor Sui1; Validated; Region: PRK06824 536056007526 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 536056007527 putative rRNA binding site [nucleotide binding]; other site 536056007528 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 536056007529 active site 536056007530 dimer interface [polypeptide binding]; other site 536056007531 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 536056007532 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 536056007533 TPR motif; other site 536056007534 binding surface 536056007535 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 536056007536 binding surface 536056007537 TPR motif; other site 536056007538 Predicted membrane protein [Function unknown]; Region: COG3771 536056007539 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 536056007540 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 536056007541 active site 536056007542 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 536056007543 dimerization interface [polypeptide binding]; other site 536056007544 active site 536056007545 aconitate hydratase; Validated; Region: PRK09277 536056007546 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 536056007547 substrate binding site [chemical binding]; other site 536056007548 ligand binding site [chemical binding]; other site 536056007549 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 536056007550 substrate binding site [chemical binding]; other site 536056007551 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 536056007552 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056007553 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 536056007554 substrate binding site [chemical binding]; other site 536056007555 putative dimerization interface [polypeptide binding]; other site 536056007556 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 536056007557 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 536056007558 active site 536056007559 interdomain interaction site; other site 536056007560 putative metal-binding site [ion binding]; other site 536056007561 nucleotide binding site [chemical binding]; other site 536056007562 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 536056007563 domain I; other site 536056007564 DNA binding groove [nucleotide binding] 536056007565 phosphate binding site [ion binding]; other site 536056007566 domain II; other site 536056007567 domain III; other site 536056007568 nucleotide binding site [chemical binding]; other site 536056007569 catalytic site [active] 536056007570 domain IV; other site 536056007571 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 536056007572 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 536056007573 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 536056007574 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 536056007575 hypothetical protein; Provisional; Region: PRK11037 536056007576 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 536056007577 putative inner membrane peptidase; Provisional; Region: PRK11778 536056007578 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 536056007579 tandem repeat interface [polypeptide binding]; other site 536056007580 oligomer interface [polypeptide binding]; other site 536056007581 active site residues [active] 536056007582 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 536056007583 Escherichia coli K-12 YCIK-like, classical (c) SDRs; Region: Ycik_SDR_c; cd05340 536056007584 NADP binding site [chemical binding]; other site 536056007585 homodimer interface [polypeptide binding]; other site 536056007586 active site 536056007587 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 536056007588 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 536056007589 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 536056007590 homodimer interface [polypeptide binding]; other site 536056007591 Walker A motif; other site 536056007592 ATP binding site [chemical binding]; other site 536056007593 hydroxycobalamin binding site [chemical binding]; other site 536056007594 Walker B motif; other site 536056007595 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 536056007596 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 536056007597 RNA binding surface [nucleotide binding]; other site 536056007598 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 536056007599 probable active site [active] 536056007600 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 536056007601 hypothetical protein; Provisional; Region: PRK11630 536056007602 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 536056007603 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 536056007604 active site 536056007605 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 536056007606 anthranilate synthase component I; Provisional; Region: PRK13564 536056007607 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 536056007608 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 536056007609 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK09522 536056007610 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 536056007611 glutamine binding [chemical binding]; other site 536056007612 catalytic triad [active] 536056007613 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 536056007614 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 536056007615 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 536056007616 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 536056007617 active site 536056007618 ribulose/triose binding site [chemical binding]; other site 536056007619 phosphate binding site [ion binding]; other site 536056007620 substrate (anthranilate) binding pocket [chemical binding]; other site 536056007621 product (indole) binding pocket [chemical binding]; other site 536056007622 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 536056007623 active site 536056007624 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 536056007625 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 536056007626 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056007627 catalytic residue [active] 536056007628 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 536056007629 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 536056007630 substrate binding site [chemical binding]; other site 536056007631 active site 536056007632 catalytic residues [active] 536056007633 heterodimer interface [polypeptide binding]; other site 536056007634 General stress protein [General function prediction only]; Region: GsiB; COG3729 536056007635 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 536056007636 dimerization interface [polypeptide binding]; other site 536056007637 metal binding site [ion binding]; metal-binding site 536056007638 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3685 536056007639 outer membrane protein W; Provisional; Region: PRK10959 536056007640 hypothetical protein; Provisional; Region: PRK02868 536056007641 intracellular septation protein A; Reviewed; Region: PRK00259 536056007642 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 536056007643 transport protein TonB; Provisional; Region: PRK10819 536056007644 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 536056007645 YciI-like protein; Reviewed; Region: PRK11370 536056007646 voltage-gated potassium channel; Provisional; Region: PRK10537 536056007647 Ion channel; Region: Ion_trans_2; pfam07885 536056007648 TrkA-N domain; Region: TrkA_N; pfam02254 536056007649 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 536056007650 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 536056007651 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 536056007652 putative active site [active] 536056007653 catalytic site [active] 536056007654 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 536056007655 putative active site [active] 536056007656 catalytic site [active] 536056007657 dsDNA-mimic protein; Reviewed; Region: PRK05094 536056007658 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 536056007659 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536056007660 Walker A/P-loop; other site 536056007661 ATP binding site [chemical binding]; other site 536056007662 Q-loop/lid; other site 536056007663 ABC transporter signature motif; other site 536056007664 Walker B; other site 536056007665 D-loop; other site 536056007666 H-loop/switch region; other site 536056007667 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 536056007668 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 536056007669 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536056007670 Walker A/P-loop; other site 536056007671 ATP binding site [chemical binding]; other site 536056007672 Q-loop/lid; other site 536056007673 ABC transporter signature motif; other site 536056007674 Walker B; other site 536056007675 D-loop; other site 536056007676 H-loop/switch region; other site 536056007677 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 536056007678 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 536056007679 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 536056007680 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 536056007681 dimer interface [polypeptide binding]; other site 536056007682 conserved gate region; other site 536056007683 putative PBP binding loops; other site 536056007684 ABC-ATPase subunit interface; other site 536056007685 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 536056007686 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 536056007687 dimer interface [polypeptide binding]; other site 536056007688 conserved gate region; other site 536056007689 putative PBP binding loops; other site 536056007690 ABC-ATPase subunit interface; other site 536056007691 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 536056007692 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 536056007693 peptide binding site [polypeptide binding]; other site 536056007694 hypothetical protein; Provisional; Region: PRK11111 536056007695 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 536056007696 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 536056007697 putative catalytic cysteine [active] 536056007698 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 536056007699 putative active site [active] 536056007700 metal binding site [ion binding]; metal-binding site 536056007701 thymidine kinase; Provisional; Region: PRK04296 536056007702 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 536056007703 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 536056007704 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 536056007705 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 536056007706 active site 536056007707 tetramer interface; other site 536056007708 hypothetical protein; Provisional; Region: PRK10279 536056007709 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 536056007710 active site 536056007711 nucleophile elbow; other site 536056007712 SEC-C motif; Region: SEC-C; pfam02810 536056007713 hypothetical protein; Provisional; Region: PRK04233 536056007714 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 536056007715 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 536056007716 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 536056007717 putative active site [active] 536056007718 putative substrate binding site [chemical binding]; other site 536056007719 putative cosubstrate binding site; other site 536056007720 catalytic site [active] 536056007721 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 536056007722 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 536056007723 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 536056007724 4Fe-4S binding domain; Region: Fer4; cl02805 536056007725 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 536056007726 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 536056007727 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 536056007728 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 536056007729 dimerization interface [polypeptide binding]; other site 536056007730 Histidine kinase; Region: HisKA_3; pfam07730 536056007731 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 536056007732 ATP binding site [chemical binding]; other site 536056007733 Mg2+ binding site [ion binding]; other site 536056007734 G-X-G motif; other site 536056007735 transcriptional regulator NarL; Provisional; Region: PRK10651 536056007736 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 536056007737 active site 536056007738 phosphorylation site [posttranslational modification] 536056007739 intermolecular recognition site; other site 536056007740 dimerization interface [polypeptide binding]; other site 536056007741 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 536056007742 DNA binding residues [nucleotide binding] 536056007743 dimerization interface [polypeptide binding]; other site 536056007744 putative invasin; Provisional; Region: PRK10177 536056007745 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 536056007746 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 536056007747 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 536056007748 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 536056007749 putative active site pocket [active] 536056007750 dimerization interface [polypeptide binding]; other site 536056007751 putative catalytic residue [active] 536056007752 cation transport regulator; Reviewed; Region: chaB; PRK09582 536056007753 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 536056007754 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 536056007755 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 536056007756 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 536056007757 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 536056007758 hypothetical protein; Provisional; Region: PRK10941 536056007759 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 536056007760 hypothetical protein; Provisional; Region: PRK10278 536056007761 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 536056007762 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 536056007763 peptide chain release factor 1; Validated; Region: prfA; PRK00591 536056007764 This domain is found in peptide chain release factors; Region: PCRF; smart00937 536056007765 RF-1 domain; Region: RF-1; pfam00472 536056007766 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 536056007767 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 536056007768 tRNA; other site 536056007769 putative tRNA binding site [nucleotide binding]; other site 536056007770 putative NADP binding site [chemical binding]; other site 536056007771 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 536056007772 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 536056007773 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 536056007774 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 536056007775 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 536056007776 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 536056007777 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 536056007778 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 536056007779 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536056007780 active site 536056007781 putative transporter; Provisional; Region: PRK11660 536056007782 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 536056007783 Sulfate transporter family; Region: Sulfate_transp; pfam00916 536056007784 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 536056007785 hypothetical protein; Provisional; Region: PRK10692 536056007786 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 536056007787 putative active site [active] 536056007788 catalytic residue [active] 536056007789 GTP-binding protein YchF; Reviewed; Region: PRK09601 536056007790 YchF GTPase; Region: YchF; cd01900 536056007791 G1 box; other site 536056007792 GTP/Mg2+ binding site [chemical binding]; other site 536056007793 Switch I region; other site 536056007794 G2 box; other site 536056007795 Switch II region; other site 536056007796 G3 box; other site 536056007797 G4 box; other site 536056007798 G5 box; other site 536056007799 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 536056007800 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 536056007801 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 536056007802 Autotransporter beta-domain; Region: Autotransporter; pfam03797 536056007803 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 536056007804 PAS domain; Region: PAS; smart00091 536056007805 putative active site [active] 536056007806 heme pocket [chemical binding]; other site 536056007807 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 536056007808 Walker A motif; other site 536056007809 ATP binding site [chemical binding]; other site 536056007810 Walker B motif; other site 536056007811 arginine finger; other site 536056007812 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536056007813 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 536056007814 Dak1 domain; Region: Dak1; pfam02733 536056007815 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 536056007816 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 536056007817 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3412 536056007818 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 536056007819 dimerization domain swap beta strand [polypeptide binding]; other site 536056007820 regulatory protein interface [polypeptide binding]; other site 536056007821 active site 536056007822 regulatory phosphorylation site [posttranslational modification]; other site 536056007823 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 536056007824 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 536056007825 trehalase; Provisional; Region: treA; PRK13271 536056007826 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 536056007827 hypothetical protein; Provisional; Region: PRK10457 536056007828 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 536056007829 Flagellar regulator YcgR; Region: YcgR; pfam07317 536056007830 PilZ domain; Region: PilZ; pfam07238 536056007831 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 536056007832 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 536056007833 N-acetyl-D-glucosamine binding site [chemical binding]; other site 536056007834 catalytic residue [active] 536056007835 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 536056007836 dimer interface [polypeptide binding]; other site 536056007837 catalytic triad [active] 536056007838 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 536056007839 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 536056007840 TrkA-C domain; Region: TrkA_C; pfam02080 536056007841 Transporter associated domain; Region: CorC_HlyC; smart01091 536056007842 alanine racemase; Reviewed; Region: dadX; PRK03646 536056007843 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 536056007844 active site 536056007845 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 536056007846 substrate binding site [chemical binding]; other site 536056007847 catalytic residues [active] 536056007848 dimer interface [polypeptide binding]; other site 536056007849 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 536056007850 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536056007851 SpoVR family protein; Provisional; Region: PRK11767 536056007852 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 536056007853 fatty acid metabolism regulator; Provisional; Region: PRK04984 536056007854 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056007855 DNA-binding site [nucleotide binding]; DNA binding site 536056007856 FadR C-terminal domain; Region: FadR_C; pfam07840 536056007857 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 536056007858 transmembrane helices; other site 536056007859 disulfide bond formation protein B; Provisional; Region: PRK01749 536056007860 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 536056007861 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 536056007862 active site 536056007863 DNA binding site [nucleotide binding] 536056007864 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 536056007865 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 536056007866 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 536056007867 Catalytic site [active] 536056007868 hemolysin E; Provisional; Region: hlyE; PRK11376 536056007869 hypothetical protein; Provisional; Region: PRK05170 536056007870 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 536056007871 hypothetical protein; Provisional; Region: PRK10691 536056007872 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 536056007873 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 536056007874 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 536056007875 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 536056007876 septum formation inhibitor; Reviewed; Region: minC; PRK03511 536056007877 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 536056007878 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 536056007879 cell division inhibitor MinD; Provisional; Region: PRK10818 536056007880 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 536056007881 Switch I; other site 536056007882 Switch II; other site 536056007883 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 536056007884 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 536056007885 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 536056007886 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 536056007887 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 536056007888 Sensors of blue-light using FAD; Region: BLUF; smart01034 536056007889 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 536056007890 transcriptional regulator MirA; Provisional; Region: PRK15043 536056007891 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 536056007892 DNA binding residues [nucleotide binding] 536056007893 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 536056007894 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 536056007895 active site 536056007896 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 536056007897 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 536056007898 catalytic residues [active] 536056007899 catalytic nucleophile [active] 536056007900 Presynaptic Site I dimer interface [polypeptide binding]; other site 536056007901 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 536056007902 Synaptic Flat tetramer interface [polypeptide binding]; other site 536056007903 Synaptic Site I dimer interface [polypeptide binding]; other site 536056007904 DNA binding site [nucleotide binding] 536056007905 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 536056007906 DNA-binding interface [nucleotide binding]; DNA binding site 536056007907 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 536056007908 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 536056007909 Phage Tail Collar Domain; Region: Collar; pfam07484 536056007910 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3778 536056007911 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 536056007912 Phage-related protein [Function unknown]; Region: COG4695 536056007913 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056007914 DNA-binding site [nucleotide binding]; DNA binding site 536056007915 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 536056007916 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 536056007917 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 536056007918 Catalytic site [active] 536056007919 Excisionase-like protein; Region: Exc; pfam07825 536056007920 putative transposase OrfB; Reviewed; Region: PHA02517 536056007921 HTH-like domain; Region: HTH_21; pfam13276 536056007922 Integrase core domain; Region: rve; pfam00665 536056007923 Integrase core domain; Region: rve_2; pfam13333 536056007924 Transposase; Region: HTH_Tnp_1; cl17663 536056007925 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 536056007926 phage exclusion protein Lit; Provisional; Region: PRK09672 536056007927 Peptidase U49; Region: Peptidase_U49; pfam10463 536056007928 Methyltransferase domain; Region: Methyltransf_23; pfam13489 536056007929 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 536056007930 S-adenosylmethionine binding site [chemical binding]; other site 536056007931 isocitrate dehydrogenase; Validated; Region: PRK07362 536056007932 isocitrate dehydrogenase; Reviewed; Region: PRK07006 536056007933 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 536056007934 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 536056007935 probable active site [active] 536056007936 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, 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_2; cd03675 536056007937 nudix motif; other site 536056007938 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 536056007939 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 536056007940 putative lysogenization regulator; Reviewed; Region: PRK00218 536056007941 adenylosuccinate lyase; Provisional; Region: PRK09285 536056007942 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 536056007943 tetramer interface [polypeptide binding]; other site 536056007944 active site 536056007945 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 536056007946 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 536056007947 active site 536056007948 phosphorylation site [posttranslational modification] 536056007949 intermolecular recognition site; other site 536056007950 dimerization interface [polypeptide binding]; other site 536056007951 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 536056007952 DNA binding site [nucleotide binding] 536056007953 sensor protein PhoQ; Provisional; Region: PRK10815 536056007954 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 536056007955 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 536056007956 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 536056007957 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 536056007958 ATP binding site [chemical binding]; other site 536056007959 Mg2+ binding site [ion binding]; other site 536056007960 G-X-G motif; other site 536056007961 Uncharacterized conserved protein [Function unknown]; Region: COG2850 536056007962 Cupin-like domain; Region: Cupin_8; pfam13621 536056007963 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 536056007964 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 536056007965 metal binding site [ion binding]; metal-binding site 536056007966 dimer interface [polypeptide binding]; other site 536056007967 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 536056007968 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056007969 Walker A/P-loop; other site 536056007970 ATP binding site [chemical binding]; other site 536056007971 Q-loop/lid; other site 536056007972 ABC transporter signature motif; other site 536056007973 Walker B; other site 536056007974 D-loop; other site 536056007975 H-loop/switch region; other site 536056007976 TOBE domain; Region: TOBE_2; pfam08402 536056007977 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 536056007978 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 536056007979 dimer interface [polypeptide binding]; other site 536056007980 conserved gate region; other site 536056007981 putative PBP binding loops; other site 536056007982 ABC-ATPase subunit interface; other site 536056007983 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 536056007984 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 536056007985 dimer interface [polypeptide binding]; other site 536056007986 conserved gate region; other site 536056007987 putative PBP binding loops; other site 536056007988 ABC-ATPase subunit interface; other site 536056007989 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 536056007990 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 536056007991 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 536056007992 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 536056007993 NAD-dependent deacetylase; Provisional; Region: PRK00481 536056007994 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 536056007995 NAD+ binding site [chemical binding]; other site 536056007996 substrate binding site [chemical binding]; other site 536056007997 Zn binding site [ion binding]; other site 536056007998 fructokinase; Reviewed; Region: PRK09557 536056007999 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 536056008000 nucleotide binding site [chemical binding]; other site 536056008001 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 536056008002 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 536056008003 FtsX-like permease family; Region: FtsX; pfam02687 536056008004 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 536056008005 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536056008006 Walker A/P-loop; other site 536056008007 ATP binding site [chemical binding]; other site 536056008008 Q-loop/lid; other site 536056008009 ABC transporter signature motif; other site 536056008010 Walker B; other site 536056008011 D-loop; other site 536056008012 H-loop/switch region; other site 536056008013 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 536056008014 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 536056008015 FtsX-like permease family; Region: FtsX; pfam02687 536056008016 Predicted membrane protein [Function unknown]; Region: COG4763 536056008017 Acyltransferase family; Region: Acyl_transf_3; pfam01757 536056008018 transcription-repair coupling factor; Provisional; Region: PRK10689 536056008019 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 536056008020 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 536056008021 ATP binding site [chemical binding]; other site 536056008022 putative Mg++ binding site [ion binding]; other site 536056008023 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 536056008024 nucleotide binding region [chemical binding]; other site 536056008025 ATP-binding site [chemical binding]; other site 536056008026 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 536056008027 L,D-transpeptidase; Provisional; Region: PRK10260 536056008028 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 536056008029 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 536056008030 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 536056008031 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536056008032 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536056008033 hypothetical protein; Provisional; Region: PRK11280 536056008034 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 536056008035 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536056008036 hypothetical protein; Provisional; Region: PRK04940 536056008037 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 536056008038 beta-hexosaminidase; Provisional; Region: PRK05337 536056008039 thiamine kinase; Region: ycfN_thiK; TIGR02721 536056008040 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 536056008041 active site 536056008042 substrate binding site [chemical binding]; other site 536056008043 ATP binding site [chemical binding]; other site 536056008044 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 536056008045 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 536056008046 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 536056008047 putative dimer interface [polypeptide binding]; other site 536056008048 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 536056008049 nucleotide binding site/active site [active] 536056008050 HIT family signature motif; other site 536056008051 catalytic residue [active] 536056008052 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 536056008053 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 536056008054 N-terminal plug; other site 536056008055 ligand-binding site [chemical binding]; other site 536056008056 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 536056008057 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 536056008058 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 536056008059 active site turn [active] 536056008060 phosphorylation site [posttranslational modification] 536056008061 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 536056008062 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 536056008063 active site 536056008064 DNA polymerase III subunit delta'; Validated; Region: PRK07993 536056008065 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 536056008066 thymidylate kinase; Validated; Region: tmk; PRK00698 536056008067 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 536056008068 TMP-binding site; other site 536056008069 ATP-binding site [chemical binding]; other site 536056008070 conserved hypothetical protein, YceG family; Region: TIGR00247 536056008071 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 536056008072 dimerization interface [polypeptide binding]; other site 536056008073 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 536056008074 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 536056008075 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056008076 catalytic residue [active] 536056008077 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 536056008078 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 536056008079 dimer interface [polypeptide binding]; other site 536056008080 active site 536056008081 acyl carrier protein; Provisional; Region: acpP; PRK00982 536056008082 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 536056008083 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 536056008084 NAD(P) binding site [chemical binding]; other site 536056008085 homotetramer interface [polypeptide binding]; other site 536056008086 homodimer interface [polypeptide binding]; other site 536056008087 active site 536056008088 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 536056008089 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 536056008090 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 536056008091 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 536056008092 dimer interface [polypeptide binding]; other site 536056008093 active site 536056008094 CoA binding pocket [chemical binding]; other site 536056008095 putative phosphate acyltransferase; Provisional; Region: PRK05331 536056008096 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 536056008097 hypothetical protein; Provisional; Region: PRK11193 536056008098 Maf-like protein; Region: Maf; pfam02545 536056008099 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 536056008100 active site 536056008101 dimer interface [polypeptide binding]; other site 536056008102 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 536056008103 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 536056008104 RNA binding surface [nucleotide binding]; other site 536056008105 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 536056008106 active site 536056008107 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 536056008108 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 536056008109 homodimer interface [polypeptide binding]; other site 536056008110 oligonucleotide binding site [chemical binding]; other site 536056008111 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 536056008112 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 536056008113 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 536056008114 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 536056008115 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 536056008116 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 536056008117 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 536056008118 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 536056008119 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 536056008120 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 536056008121 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 536056008122 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 536056008123 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 536056008124 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 536056008125 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 536056008126 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 536056008127 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgF; COG4787 536056008128 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 536056008129 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 536056008130 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 536056008131 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 536056008132 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 536056008133 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 536056008134 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 536056008135 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 536056008136 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 536056008137 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 536056008138 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 536056008139 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 536056008140 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 536056008141 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 536056008142 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 536056008143 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 536056008144 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 536056008145 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 536056008146 flagella synthesis chaperone protein FlgN; Provisional; Region: PRK15459 536056008147 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 536056008148 MviN-like protein; Region: MVIN; pfam03023 536056008149 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 536056008150 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 536056008151 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 536056008152 hypothetical protein; Provisional; Region: PRK11239 536056008153 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 536056008154 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 536056008155 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 536056008156 multidrug resistance protein MdtH; Provisional; Region: PRK11646 536056008157 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 536056008158 putative substrate translocation pore; other site 536056008159 glutaredoxin 2; Provisional; Region: PRK10387 536056008160 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 536056008161 C-terminal domain interface [polypeptide binding]; other site 536056008162 GSH binding site (G-site) [chemical binding]; other site 536056008163 catalytic residues [active] 536056008164 putative dimer interface [polypeptide binding]; other site 536056008165 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 536056008166 N-terminal domain interface [polypeptide binding]; other site 536056008167 lipoprotein; Provisional; Region: PRK10598 536056008168 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 536056008169 active site 536056008170 substrate binding pocket [chemical binding]; other site 536056008171 dimer interface [polypeptide binding]; other site 536056008172 DNA damage-inducible protein I; Provisional; Region: PRK10597 536056008173 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 536056008174 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 536056008175 hydroxyglutarate oxidase; Provisional; Region: PRK11728 536056008176 Protein of unknown function (DUF2770); Region: DUF2770; pfam10968 536056008177 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 536056008178 hypothetical protein; Provisional; Region: PRK03757 536056008179 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 536056008180 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 536056008181 active site residue [active] 536056008182 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 536056008183 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 536056008184 putative acyl-acceptor binding pocket; other site 536056008185 drug efflux system protein MdtG; Provisional; Region: PRK09874 536056008186 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 536056008187 putative substrate translocation pore; other site 536056008188 secY/secA suppressor protein; Provisional; Region: PRK11467 536056008189 lipoprotein; Provisional; Region: PRK10175 536056008190 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 536056008191 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 536056008192 Ligand binding site; other site 536056008193 DXD motif; other site 536056008194 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 536056008195 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; pfam04349 536056008196 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 536056008197 Acyltransferase family; Region: Acyl_transf_3; pfam01757 536056008198 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 536056008199 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 536056008200 putative active site [active] 536056008201 catalytic site [active] 536056008202 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 536056008203 putative active site [active] 536056008204 catalytic site [active] 536056008205 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 536056008206 putative ADP-ribose binding site [chemical binding]; other site 536056008207 putative active site [active] 536056008208 Fimbrial protein; Region: Fimbrial; cl01416 536056008209 curli assembly protein CsgC; Provisional; Region: csgC; PRK10102 536056008210 major curlin subunit; Provisional; Region: csgA; PRK10051 536056008211 Curlin associated repeat; Region: Curlin_rpt; pfam07012 536056008212 Curlin associated repeat; Region: Curlin_rpt; pfam07012 536056008213 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 536056008214 Curlin associated repeat; Region: Curlin_rpt; pfam07012 536056008215 Curlin associated repeat; Region: Curlin_rpt; pfam07012 536056008216 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 536056008217 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 536056008218 DNA binding residues [nucleotide binding] 536056008219 dimerization interface [polypeptide binding]; other site 536056008220 curli assembly protein CsgE; Provisional; Region: PRK10386 536056008221 curli assembly protein CsgF; Provisional; Region: PRK10050 536056008222 curli production assembly/transport protein CsgG; Provisional; Region: PRK15184 536056008223 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 536056008224 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 536056008225 putative hydrolase; Validated; Region: PRK09248 536056008226 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 536056008227 active site 536056008228 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 536056008229 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 536056008230 putative ligand binding site [chemical binding]; other site 536056008231 NAD binding site [chemical binding]; other site 536056008232 dimerization interface [polypeptide binding]; other site 536056008233 catalytic site [active] 536056008234 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 536056008235 Transposase; Region: HTH_Tnp_1; cl17663 536056008236 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 536056008237 putative transposase OrfB; Reviewed; Region: PHA02517 536056008238 HTH-like domain; Region: HTH_21; pfam13276 536056008239 Integrase core domain; Region: rve; pfam00665 536056008240 Integrase core domain; Region: rve_2; pfam13333 536056008241 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536056008242 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536056008243 metal binding site [ion binding]; metal-binding site 536056008244 active site 536056008245 I-site; other site 536056008246 Transposase domain (DUF772); Region: DUF772; pfam05598 536056008247 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 536056008248 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 536056008249 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 536056008250 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 536056008251 putative active site [active] 536056008252 putative metal binding site [ion binding]; other site 536056008253 N-glycosyltransferase; Provisional; Region: PRK11204 536056008254 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 536056008255 DXD motif; other site 536056008256 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 536056008257 putative PGA biosynthesis protein; Provisional; Region: pgaD; PRK14585 536056008258 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 536056008259 hypothetical protein; Provisional; Region: PRK10536 536056008260 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 536056008261 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 536056008262 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 536056008263 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 536056008264 Imelysin; Region: Peptidase_M75; pfam09375 536056008265 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 536056008266 Na binding site [ion binding]; other site 536056008267 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 536056008268 Predicted transcriptional regulator [Transcription]; Region: COG3905 536056008269 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 536056008270 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 536056008271 Glutamate binding site [chemical binding]; other site 536056008272 NAD binding site [chemical binding]; other site 536056008273 catalytic residues [active] 536056008274 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 536056008275 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536056008276 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 536056008277 pyrimidine utilization protein A; Region: RutA; TIGR03612 536056008278 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 536056008279 active site 536056008280 dimer interface [polypeptide binding]; other site 536056008281 non-prolyl cis peptide bond; other site 536056008282 insertion regions; other site 536056008283 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 536056008284 Isochorismatase family; Region: Isochorismatase; pfam00857 536056008285 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 536056008286 catalytic triad [active] 536056008287 conserved cis-peptide bond; other site 536056008288 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 536056008289 homotrimer interaction site [polypeptide binding]; other site 536056008290 putative active site [active] 536056008291 pyrimidine utilization protein D; Region: RutD; TIGR03611 536056008292 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 536056008293 putative FMN binding site [chemical binding]; other site 536056008294 pyrimidine utilization flavin reductase protein F; Region: RutF; TIGR03615 536056008295 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 536056008296 General stress protein [General function prediction only]; Region: GsiB; COG3729 536056008297 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 536056008298 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 536056008299 hypothetical protein; Provisional; Region: PRK10174 536056008300 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 536056008301 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 536056008302 catalytic core [active] 536056008303 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 536056008304 hypothetical protein; Provisional; Region: PRK09784 536056008305 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 536056008306 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 536056008307 HSP70 interaction site [polypeptide binding]; other site 536056008308 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 536056008309 substrate binding site [polypeptide binding]; other site 536056008310 dimer interface [polypeptide binding]; other site 536056008311 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 536056008312 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 536056008313 chaperone protein TorD; Validated; Region: torD; PRK04976 536056008314 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 536056008315 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 536056008316 molybdopterin cofactor binding site [chemical binding]; other site 536056008317 substrate binding site [chemical binding]; other site 536056008318 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 536056008319 molybdopterin cofactor binding site; other site 536056008320 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional; Region: PRK15032 536056008321 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 536056008322 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 536056008323 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 536056008324 active site 536056008325 phosphorylation site [posttranslational modification] 536056008326 intermolecular recognition site; other site 536056008327 dimerization interface [polypeptide binding]; other site 536056008328 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 536056008329 DNA binding site [nucleotide binding] 536056008330 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 536056008331 TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria; Region: PBP1_TorT-like; cd06306 536056008332 putative ligand binding site [chemical binding]; other site 536056008333 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 536056008334 HAMP domain; Region: HAMP; pfam00672 536056008335 dimerization interface [polypeptide binding]; other site 536056008336 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 536056008337 dimer interface [polypeptide binding]; other site 536056008338 phosphorylation site [posttranslational modification] 536056008339 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 536056008340 ATP binding site [chemical binding]; other site 536056008341 Mg2+ binding site [ion binding]; other site 536056008342 G-X-G motif; other site 536056008343 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 536056008344 active site 536056008345 phosphorylation site [posttranslational modification] 536056008346 intermolecular recognition site; other site 536056008347 dimerization interface [polypeptide binding]; other site 536056008348 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 536056008349 putative binding surface; other site 536056008350 active site 536056008351 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 536056008352 4Fe-4S binding domain; Region: Fer4_5; pfam12801 536056008353 4Fe-4S binding domain; Region: Fer4_5; pfam12801 536056008354 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 536056008355 GnsA/GnsB family; Region: GnsAB; pfam08178 536056008356 cold shock gene; Provisional; Region: PRK09891 536056008357 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 536056008358 DNA-binding site [nucleotide binding]; DNA binding site 536056008359 RNA-binding motif; other site 536056008360 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 536056008361 DNA-binding site [nucleotide binding]; DNA binding site 536056008362 RNA-binding motif; other site 536056008363 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 536056008364 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 536056008365 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 536056008366 polysaccharide export protein Wza; Provisional; Region: PRK15078 536056008367 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 536056008368 SLBB domain; Region: SLBB; pfam10531 536056008369 SLBB domain; Region: SLBB; pfam10531 536056008370 Low molecular weight phosphatase family; Region: LMWPc; cd00115 536056008371 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 536056008372 active site 536056008373 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 536056008374 Chain length determinant protein; Region: Wzz; pfam02706 536056008375 Chain length determinant protein; Region: Wzz; cl15801 536056008376 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 536056008377 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 536056008378 Nucleotide binding site [chemical binding]; other site 536056008379 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 536056008380 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 536056008381 catalytic core [active] 536056008382 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 536056008383 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 536056008384 cytochrome bd-II oxidase subunit 2; Provisional; Region: PRK15028 536056008385 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 536056008386 cytochrome bd-II oxidase subunit 1; Provisional; Region: PRK15035 536056008387 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 536056008388 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 536056008389 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 536056008390 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 536056008391 putative substrate-binding site; other site 536056008392 nickel binding site [ion binding]; other site 536056008393 hydrogenase 1 b-type cytochrome subunit; Provisional; Region: PRK10171 536056008394 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 536056008395 hydrogenase 1 large subunit; Provisional; Region: PRK10170 536056008396 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 536056008397 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 536056008398 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 536056008399 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 536056008400 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 536056008401 YccA-like proteins; Region: YccA_like; cd10433 536056008402 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 536056008403 sulfur transfer protein TusE; Provisional; Region: PRK11508 536056008404 Acylphosphatase; Region: Acylphosphatase; cl00551 536056008405 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 536056008406 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 536056008407 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 536056008408 putative RNA binding site [nucleotide binding]; other site 536056008409 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 536056008410 S-adenosylmethionine binding site [chemical binding]; other site 536056008411 heat shock protein HspQ; Provisional; Region: PRK14129 536056008412 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 536056008413 hypothetical protein; Provisional; Region: PRK03641 536056008414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3110 536056008415 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 536056008416 active site 536056008417 dimer interfaces [polypeptide binding]; other site 536056008418 catalytic residues [active] 536056008419 DNA helicase IV; Provisional; Region: helD; PRK11054 536056008420 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 536056008421 Part of AAA domain; Region: AAA_19; pfam13245 536056008422 Family description; Region: UvrD_C_2; pfam13538 536056008423 Predicted membrane protein [Function unknown]; Region: COG3304 536056008424 Domain of unknown function (DUF307); Region: DUF307; pfam03733 536056008425 Domain of unknown function (DUF307); Region: DUF307; pfam03733 536056008426 TIGR01666 family membrane protein; Region: YCCS 536056008427 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 536056008428 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 536056008429 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 536056008430 TfoX C-terminal domain; Region: TfoX_C; pfam04994 536056008431 cell division inhibitor SulA; Region: sula; TIGR00623 536056008432 outer membrane protein A; Reviewed; Region: PRK10808 536056008433 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 536056008434 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536056008435 ligand binding site [chemical binding]; other site 536056008436 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 536056008437 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 536056008438 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 536056008439 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 536056008440 active site 1 [active] 536056008441 dimer interface [polypeptide binding]; other site 536056008442 active site 2 [active] 536056008443 ribosome modulation factor; Provisional; Region: PRK14563 536056008444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 536056008445 Protein of unknown function (DUF330); Region: DUF330; pfam03886 536056008446 paraquat-inducible protein B; Provisional; Region: PRK10807 536056008447 mce related protein; Region: MCE; pfam02470 536056008448 mce related protein; Region: MCE; pfam02470 536056008449 mce related protein; Region: MCE; pfam02470 536056008450 DASH complex subunit Duo1; Region: DASH_Duo1; pfam08651 536056008451 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 536056008452 Paraquat-inducible protein A; Region: PqiA; pfam04403 536056008453 Paraquat-inducible protein A; Region: PqiA; pfam04403 536056008454 ABC transporter ATPase component; Reviewed; Region: PRK11147 536056008455 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056008456 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056008457 Walker A/P-loop; other site 536056008458 Walker A/P-loop; other site 536056008459 ATP binding site [chemical binding]; other site 536056008460 ATP binding site [chemical binding]; other site 536056008461 Q-loop/lid; other site 536056008462 Q-loop/lid; other site 536056008463 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536056008464 ABC transporter signature motif; other site 536056008465 Walker B; other site 536056008466 D-loop; other site 536056008467 ABC transporter; Region: ABC_tran_2; pfam12848 536056008468 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536056008469 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 536056008470 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 536056008471 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 536056008472 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 536056008473 S-adenosylmethionine binding site [chemical binding]; other site 536056008474 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 536056008475 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 536056008476 MOSC domain; Region: MOSC; pfam03473 536056008477 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 536056008478 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 536056008479 catalytic loop [active] 536056008480 iron binding site [ion binding]; other site 536056008481 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 536056008482 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 536056008483 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 536056008484 quinone interaction residues [chemical binding]; other site 536056008485 active site 536056008486 catalytic residues [active] 536056008487 FMN binding site [chemical binding]; other site 536056008488 substrate binding site [chemical binding]; other site 536056008489 putativi pili assembly chaperone; Provisional; Region: PRK11385 536056008490 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 536056008491 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 536056008492 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 536056008493 Fimbrial protein; Region: Fimbrial; cl01416 536056008494 Fimbrial protein; Region: Fimbrial; cl01416 536056008495 outer membrane usher protein; Provisional; Region: PRK15193 536056008496 PapC N-terminal domain; Region: PapC_N; pfam13954 536056008497 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 536056008498 PapC C-terminal domain; Region: PapC_C; pfam13953 536056008499 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 536056008500 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 536056008501 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 536056008502 Fimbrial protein; Region: Fimbrial; cl01416 536056008503 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 536056008504 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 536056008505 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 536056008506 substrate binding pocket [chemical binding]; other site 536056008507 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 536056008508 membrane-bound complex binding site; other site 536056008509 hinge residues; other site 536056008510 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 536056008511 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 536056008512 active site 536056008513 dimer interface [polypeptide binding]; other site 536056008514 non-prolyl cis peptide bond; other site 536056008515 insertion regions; other site 536056008516 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 536056008517 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 536056008518 dimer interface [polypeptide binding]; other site 536056008519 conserved gate region; other site 536056008520 putative PBP binding loops; other site 536056008521 ABC-ATPase subunit interface; other site 536056008522 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 536056008523 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 536056008524 Walker A/P-loop; other site 536056008525 ATP binding site [chemical binding]; other site 536056008526 Q-loop/lid; other site 536056008527 ABC transporter signature motif; other site 536056008528 Walker B; other site 536056008529 D-loop; other site 536056008530 H-loop/switch region; other site 536056008531 aminopeptidase N; Provisional; Region: pepN; PRK14015 536056008532 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 536056008533 active site 536056008534 Zn binding site [ion binding]; other site 536056008535 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 536056008536 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 536056008537 active site 536056008538 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 536056008539 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 536056008540 putative dimer interface [polypeptide binding]; other site 536056008541 putative anticodon binding site; other site 536056008542 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 536056008543 homodimer interface [polypeptide binding]; other site 536056008544 motif 1; other site 536056008545 motif 2; other site 536056008546 active site 536056008547 motif 3; other site 536056008548 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 536056008549 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 536056008550 trimer interface [polypeptide binding]; other site 536056008551 eyelet of channel; other site 536056008552 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 536056008553 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 536056008554 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056008555 homodimer interface [polypeptide binding]; other site 536056008556 catalytic residue [active] 536056008557 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 536056008558 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 536056008559 Peptidase M15; Region: Peptidase_M15_3; cl01194 536056008560 murein L,D-transpeptidase; Provisional; Region: PRK10594 536056008561 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 536056008562 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 536056008563 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 536056008564 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 536056008565 MukB N-terminal; Region: MukB; pfam04310 536056008566 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 536056008567 condesin subunit E; Provisional; Region: PRK05256 536056008568 condesin subunit F; Provisional; Region: PRK05260 536056008569 Methyltransferase domain; Region: Methyltransf_31; pfam13847 536056008570 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 536056008571 S-adenosylmethionine binding site [chemical binding]; other site 536056008572 Uncharacterized conserved protein [Function unknown]; Region: COG1434 536056008573 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 536056008574 putative active site [active] 536056008575 hypothetical protein; Provisional; Region: PRK10593 536056008576 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 536056008577 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 536056008578 Ligand binding site; other site 536056008579 oligomer interface; other site 536056008580 hypothetical protein; Provisional; Region: PRK11827 536056008581 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 536056008582 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 536056008583 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 536056008584 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 536056008585 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 536056008586 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536056008587 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 536056008588 Walker A/P-loop; other site 536056008589 ATP binding site [chemical binding]; other site 536056008590 Q-loop/lid; other site 536056008591 ABC transporter signature motif; other site 536056008592 Walker B; other site 536056008593 D-loop; other site 536056008594 H-loop/switch region; other site 536056008595 ComEC family competence protein; Provisional; Region: PRK11539 536056008596 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 536056008597 ComEC/Rec2-related protein; Region: ComEC_N-term; TIGR00360 536056008598 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 536056008599 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 536056008600 IHF dimer interface [polypeptide binding]; other site 536056008601 IHF - DNA interface [nucleotide binding]; other site 536056008602 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 536056008603 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 536056008604 RNA binding site [nucleotide binding]; other site 536056008605 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...; Region: S1_RPS1_repeat_ec3; cd05688 536056008606 RNA binding site [nucleotide binding]; other site 536056008607 S1_RPS1_repeat_ec4: 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_ec4; cd05689 536056008608 RNA binding site [nucleotide binding]; other site 536056008609 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...; Region: S1_RPS1_repeat_ec5; cd05690 536056008610 RNA binding site [nucleotide binding]; other site 536056008611 S1_RPS1_repeat_ec6: 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_ec6; cd05691 536056008612 RNA binding site [nucleotide binding]; other site 536056008613 cytidylate kinase; Provisional; Region: cmk; PRK00023 536056008614 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 536056008615 CMP-binding site; other site 536056008616 The sites determining sugar specificity; other site 536056008617 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 536056008618 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 536056008619 Enol pyruvate transferases family includes EPSP synthases and UDP-N-acetylglucosamine enolpyruvyl transferase. Both enzymes catalyze the reaction of enolpyruvyl transfer; Region: EPT-like; cd01554 536056008620 hinge; other site 536056008621 active site 536056008622 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 536056008623 homodimer interface [polypeptide binding]; other site 536056008624 substrate-cofactor binding pocket; other site 536056008625 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056008626 catalytic residue [active] 536056008627 Predicted membrane protein [Function unknown]; Region: COG2323 536056008628 uncharacterized domain; Region: TIGR00702 536056008629 YcaO-like family; Region: YcaO; pfam02624 536056008630 formate transporter; Provisional; Region: PRK10805 536056008631 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 536056008632 Pyruvate formate lyase 1; Region: PFL1; cd01678 536056008633 coenzyme A binding site [chemical binding]; other site 536056008634 active site 536056008635 catalytic residues [active] 536056008636 glycine loop; other site 536056008637 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 536056008638 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 536056008639 FeS/SAM binding site; other site 536056008640 hypothetical protein; Provisional; Region: PRK09739 536056008641 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 536056008642 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536056008643 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056008644 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 536056008645 putative effector binding pocket; other site 536056008646 putative dimerization interface [polypeptide binding]; other site 536056008647 Amino acid permease; Region: AA_permease_2; pfam13520 536056008648 putative MFS family transporter protein; Provisional; Region: PRK03633 536056008649 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 536056008650 putative substrate translocation pore; other site 536056008651 Isochorismatase family; Region: Isochorismatase; pfam00857 536056008652 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 536056008653 catalytic triad [active] 536056008654 dimer interface [polypeptide binding]; other site 536056008655 conserved cis-peptide bond; other site 536056008656 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 536056008657 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 536056008658 4Fe-4S binding domain; Region: Fer4; pfam00037 536056008659 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 536056008660 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 536056008661 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 536056008662 putative [Fe4-S4] binding site [ion binding]; other site 536056008663 putative molybdopterin cofactor binding site [chemical binding]; other site 536056008664 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 536056008665 putative molybdopterin cofactor binding site; other site 536056008666 seryl-tRNA synthetase; Provisional; Region: PRK05431 536056008667 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 536056008668 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 536056008669 dimer interface [polypeptide binding]; other site 536056008670 active site 536056008671 motif 1; other site 536056008672 motif 2; other site 536056008673 motif 3; other site 536056008674 recombination factor protein RarA; Reviewed; Region: PRK13342 536056008675 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 536056008676 Walker A motif; other site 536056008677 ATP binding site [chemical binding]; other site 536056008678 Walker B motif; other site 536056008679 arginine finger; other site 536056008680 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 536056008681 periplasmic chaperone LolA; Region: lolA; TIGR00547 536056008682 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 536056008683 DNA translocase FtsK; Provisional; Region: PRK10263 536056008684 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 536056008685 DNA translocase FtsK; Provisional; Region: PRK10263 536056008686 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 536056008687 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 536056008688 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 536056008689 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 536056008690 putative DNA binding site [nucleotide binding]; other site 536056008691 putative Zn2+ binding site [ion binding]; other site 536056008692 AsnC family; Region: AsnC_trans_reg; pfam01037 536056008693 thioredoxin reductase; Provisional; Region: PRK10262 536056008694 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 536056008695 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536056008696 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 536056008697 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536056008698 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056008699 Walker A/P-loop; other site 536056008700 ATP binding site [chemical binding]; other site 536056008701 Q-loop/lid; other site 536056008702 ABC transporter signature motif; other site 536056008703 Walker B; other site 536056008704 D-loop; other site 536056008705 H-loop/switch region; other site 536056008706 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 536056008707 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536056008708 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 536056008709 Walker A/P-loop; other site 536056008710 ATP binding site [chemical binding]; other site 536056008711 Q-loop/lid; other site 536056008712 ABC transporter signature motif; other site 536056008713 Walker B; other site 536056008714 D-loop; other site 536056008715 H-loop/switch region; other site 536056008716 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 536056008717 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 536056008718 rRNA binding site [nucleotide binding]; other site 536056008719 predicted 30S ribosome binding site; other site 536056008720 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 536056008721 Clp amino terminal domain; Region: Clp_N; pfam02861 536056008722 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 536056008723 Walker A motif; other site 536056008724 ATP binding site [chemical binding]; other site 536056008725 Walker B motif; other site 536056008726 arginine finger; other site 536056008727 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 536056008728 Walker A motif; other site 536056008729 ATP binding site [chemical binding]; other site 536056008730 Walker B motif; other site 536056008731 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 536056008732 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 536056008733 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 536056008734 DNA-binding site [nucleotide binding]; DNA binding site 536056008735 RNA-binding motif; other site 536056008736 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 536056008737 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536056008738 Walker A/P-loop; other site 536056008739 ATP binding site [chemical binding]; other site 536056008740 Q-loop/lid; other site 536056008741 ABC transporter signature motif; other site 536056008742 Walker B; other site 536056008743 D-loop; other site 536056008744 H-loop/switch region; other site 536056008745 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 536056008746 FtsX-like permease family; Region: FtsX; pfam02687 536056008747 macrolide transporter subunit MacA; Provisional; Region: PRK11578 536056008748 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536056008749 HlyD family secretion protein; Region: HlyD_3; pfam13437 536056008750 Protein of unknown function (DUF535); Region: DUF535; pfam04393 536056008751 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 536056008752 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 536056008753 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 536056008754 putative active site [active] 536056008755 putative metal-binding site [ion binding]; other site 536056008756 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; cd00333 536056008757 amphipathic channel; other site 536056008758 Asn-Pro-Ala signature motifs; other site 536056008759 Predicted membrane protein [Function unknown]; Region: COG2431 536056008760 hybrid cluster protein; Provisional; Region: PRK05290 536056008761 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 536056008762 ACS interaction site; other site 536056008763 CODH interaction site; other site 536056008764 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 536056008765 hybrid metal cluster; other site 536056008766 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 536056008767 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 536056008768 FAD binding pocket [chemical binding]; other site 536056008769 FAD binding motif [chemical binding]; other site 536056008770 phosphate binding motif [ion binding]; other site 536056008771 beta-alpha-beta structure motif; other site 536056008772 NAD binding pocket [chemical binding]; other site 536056008773 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 536056008774 catalytic loop [active] 536056008775 iron binding site [ion binding]; other site 536056008776 pyruvate dehydrogenase; Provisional; Region: PRK09124 536056008777 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 536056008778 PYR/PP interface [polypeptide binding]; other site 536056008779 dimer interface [polypeptide binding]; other site 536056008780 tetramer interface [polypeptide binding]; other site 536056008781 TPP binding site [chemical binding]; other site 536056008782 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 536056008783 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 536056008784 TPP-binding site [chemical binding]; other site 536056008785 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 536056008786 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 536056008787 tetramer interface [polypeptide binding]; other site 536056008788 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056008789 catalytic residue [active] 536056008790 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 536056008791 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 536056008792 putative NAD(P) binding site [chemical binding]; other site 536056008793 putative active site [active] 536056008794 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 536056008795 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 536056008796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 536056008797 NAD(P) binding site [chemical binding]; other site 536056008798 active site 536056008799 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 536056008800 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 536056008801 amidase catalytic site [active] 536056008802 Zn binding residues [ion binding]; other site 536056008803 substrate binding site [chemical binding]; other site 536056008804 hypothetical protein; Provisional; Region: PRK02877 536056008805 putative lipoprotein; Provisional; Region: PRK10533 536056008806 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 536056008807 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056008808 Walker A/P-loop; other site 536056008809 ATP binding site [chemical binding]; other site 536056008810 Q-loop/lid; other site 536056008811 ABC transporter signature motif; other site 536056008812 Walker B; other site 536056008813 D-loop; other site 536056008814 H-loop/switch region; other site 536056008815 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 536056008816 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 536056008817 substrate binding pocket [chemical binding]; other site 536056008818 membrane-bound complex binding site; other site 536056008819 hinge residues; other site 536056008820 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536056008821 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 536056008822 dimer interface [polypeptide binding]; other site 536056008823 conserved gate region; other site 536056008824 putative PBP binding loops; other site 536056008825 ABC-ATPase subunit interface; other site 536056008826 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 536056008827 dimer interface [polypeptide binding]; other site 536056008828 conserved gate region; other site 536056008829 putative PBP binding loops; other site 536056008830 ABC-ATPase subunit interface; other site 536056008831 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 536056008832 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 536056008833 substrate binding pocket [chemical binding]; other site 536056008834 membrane-bound complex binding site; other site 536056008835 hinge residues; other site 536056008836 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 536056008837 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 536056008838 S-adenosylmethionine binding site [chemical binding]; other site 536056008839 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 536056008840 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 536056008841 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 536056008842 dimer interface [polypeptide binding]; other site 536056008843 conserved gate region; other site 536056008844 putative PBP binding loops; other site 536056008845 ABC-ATPase subunit interface; other site 536056008846 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 536056008847 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 536056008848 dimer interface [polypeptide binding]; other site 536056008849 conserved gate region; other site 536056008850 putative PBP binding loops; other site 536056008851 ABC-ATPase subunit interface; other site 536056008852 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 536056008853 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056008854 Walker A/P-loop; other site 536056008855 ATP binding site [chemical binding]; other site 536056008856 Q-loop/lid; other site 536056008857 ABC transporter signature motif; other site 536056008858 Walker B; other site 536056008859 D-loop; other site 536056008860 H-loop/switch region; other site 536056008861 TOBE domain; Region: TOBE_2; pfam08402 536056008862 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 536056008863 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 536056008864 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 536056008865 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 536056008866 RimK-like ATP-grasp domain; Region: RimK; pfam08443 536056008867 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 536056008868 dimer interface [polypeptide binding]; other site 536056008869 FMN binding site [chemical binding]; other site 536056008870 NADPH bind site [chemical binding]; other site 536056008871 Protein of unknown function (DUF1418); Region: DUF1418; pfam07214 536056008872 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 536056008873 GSH binding site [chemical binding]; other site 536056008874 catalytic residues [active] 536056008875 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 536056008876 putative transporter; Provisional; Region: PRK04972 536056008877 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 536056008878 TrkA-C domain; Region: TrkA_C; pfam02080 536056008879 TrkA-C domain; Region: TrkA_C; pfam02080 536056008880 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 536056008881 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 536056008882 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536056008883 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 536056008884 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 536056008885 putative substrate translocation pore; other site 536056008886 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536056008887 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 536056008888 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 536056008889 active site 536056008890 motif I; other site 536056008891 motif II; other site 536056008892 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 536056008893 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 536056008894 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 536056008895 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 536056008896 putative substrate translocation pore; other site 536056008897 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 536056008898 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 536056008899 active site 536056008900 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 536056008901 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 536056008902 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 536056008903 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 536056008904 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 536056008905 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 536056008906 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 536056008907 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 536056008908 putative C-terminal domain interface [polypeptide binding]; other site 536056008909 putative GSH binding site (G-site) [chemical binding]; other site 536056008910 putative dimer interface [polypeptide binding]; other site 536056008911 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 536056008912 N-terminal domain interface [polypeptide binding]; other site 536056008913 dimer interface [polypeptide binding]; other site 536056008914 substrate binding pocket (H-site) [chemical binding]; other site 536056008915 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 536056008916 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 536056008917 biofilm formation regulatory protein BssR; Reviewed; Region: bssR; PRK12302 536056008918 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 536056008919 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 536056008920 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 536056008921 FeS/SAM binding site; other site 536056008922 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 536056008923 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536056008924 metal binding site [ion binding]; metal-binding site 536056008925 active site 536056008926 I-site; other site 536056008927 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 536056008928 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 536056008929 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 536056008930 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 536056008931 dimer interface [polypeptide binding]; other site 536056008932 conserved gate region; other site 536056008933 putative PBP binding loops; other site 536056008934 ABC-ATPase subunit interface; other site 536056008935 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 536056008936 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 536056008937 dimer interface [polypeptide binding]; other site 536056008938 conserved gate region; other site 536056008939 putative PBP binding loops; other site 536056008940 ABC-ATPase subunit interface; other site 536056008941 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 536056008942 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 536056008943 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 536056008944 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536056008945 Walker A/P-loop; other site 536056008946 ATP binding site [chemical binding]; other site 536056008947 Q-loop/lid; other site 536056008948 ABC transporter signature motif; other site 536056008949 Walker B; other site 536056008950 D-loop; other site 536056008951 H-loop/switch region; other site 536056008952 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 536056008953 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536056008954 Walker A/P-loop; other site 536056008955 ATP binding site [chemical binding]; other site 536056008956 Q-loop/lid; other site 536056008957 ABC transporter signature motif; other site 536056008958 Walker B; other site 536056008959 D-loop; other site 536056008960 H-loop/switch region; other site 536056008961 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 536056008962 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 536056008963 catalytic nucleophile [active] 536056008964 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 536056008965 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 536056008966 dimer interface [polypeptide binding]; other site 536056008967 putative functional site; other site 536056008968 putative MPT binding site; other site 536056008969 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 536056008970 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 536056008971 ATP binding site [chemical binding]; other site 536056008972 substrate interface [chemical binding]; other site 536056008973 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 536056008974 active site 536056008975 intersubunit interactions; other site 536056008976 catalytic residue [active] 536056008977 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 536056008978 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 536056008979 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 536056008980 dimer interface [polypeptide binding]; other site 536056008981 active site 536056008982 glycine loop; other site 536056008983 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 536056008984 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 536056008985 active site 536056008986 motif I; other site 536056008987 motif II; other site 536056008988 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 536056008989 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 536056008990 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 536056008991 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056008992 Walker A/P-loop; other site 536056008993 ATP binding site [chemical binding]; other site 536056008994 Q-loop/lid; other site 536056008995 ABC transporter signature motif; other site 536056008996 Walker B; other site 536056008997 D-loop; other site 536056008998 H-loop/switch region; other site 536056008999 ABC transporter; Region: ABC_tran_2; pfam12848 536056009000 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536056009001 L,D-transpeptidase; Provisional; Region: PRK10260 536056009002 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 536056009003 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 536056009004 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 536056009005 transmembrane helices; other site 536056009006 manganese transport regulator MntR; Provisional; Region: PRK11050 536056009007 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 536056009008 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 536056009009 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 536056009010 Sulfatase; Region: Sulfatase; pfam00884 536056009011 outer membrane protein X; Provisional; Region: ompX; PRK09408 536056009012 threonine and homoserine efflux system; Provisional; Region: PRK10532 536056009013 EamA-like transporter family; Region: EamA; pfam00892 536056009014 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 536056009015 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 536056009016 dimerization interface [polypeptide binding]; other site 536056009017 DPS ferroxidase diiron center [ion binding]; other site 536056009018 ion pore; other site 536056009019 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 536056009020 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 536056009021 substrate binding pocket [chemical binding]; other site 536056009022 membrane-bound complex binding site; other site 536056009023 hinge residues; other site 536056009024 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536056009025 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 536056009026 dimer interface [polypeptide binding]; other site 536056009027 conserved gate region; other site 536056009028 putative PBP binding loops; other site 536056009029 ABC-ATPase subunit interface; other site 536056009030 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 536056009031 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 536056009032 Walker A/P-loop; other site 536056009033 ATP binding site [chemical binding]; other site 536056009034 Q-loop/lid; other site 536056009035 ABC transporter signature motif; other site 536056009036 Walker B; other site 536056009037 D-loop; other site 536056009038 H-loop/switch region; other site 536056009039 putative mechanosensitive channel protein; Provisional; Region: PRK11465 536056009040 Mechanosensitive ion channel; Region: MS_channel; pfam00924 536056009041 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 536056009042 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 536056009043 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 536056009044 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 536056009045 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 536056009046 N-terminal plug; other site 536056009047 ligand-binding site [chemical binding]; other site 536056009048 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 536056009049 hypothetical protein; Provisional; Region: PRK11019 536056009050 hypothetical protein; Provisional; Region: PRK10259 536056009051 putative dehydrogenase; Provisional; Region: PRK10098 536056009052 glycosyl transferase family protein; Provisional; Region: PRK08136 536056009053 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 536056009054 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 536056009055 DEAD_2; Region: DEAD_2; pfam06733 536056009056 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 536056009057 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3236 536056009058 helicase 45; Provisional; Region: PTZ00424 536056009059 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 536056009060 ATP binding site [chemical binding]; other site 536056009061 Mg++ binding site [ion binding]; other site 536056009062 motif III; other site 536056009063 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 536056009064 nucleotide binding region [chemical binding]; other site 536056009065 ATP-binding site [chemical binding]; other site 536056009066 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 536056009067 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 536056009068 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 536056009069 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536056009070 HlyD family secretion protein; Region: HlyD_3; pfam13437 536056009071 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536056009072 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 536056009073 Walker A/P-loop; other site 536056009074 ATP binding site [chemical binding]; other site 536056009075 Q-loop/lid; other site 536056009076 ABC transporter signature motif; other site 536056009077 Walker B; other site 536056009078 D-loop; other site 536056009079 H-loop/switch region; other site 536056009080 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 536056009081 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 536056009082 Walker A/P-loop; other site 536056009083 ATP binding site [chemical binding]; other site 536056009084 Q-loop/lid; other site 536056009085 ABC transporter signature motif; other site 536056009086 Walker B; other site 536056009087 D-loop; other site 536056009088 H-loop/switch region; other site 536056009089 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 536056009090 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 536056009091 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 536056009092 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 536056009093 Putative inner membrane protein YbhQ; Region: YbhQ; pfam11076 536056009094 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 536056009095 putative catalytic site [active] 536056009096 putative metal binding site [ion binding]; other site 536056009097 putative phosphate binding site [ion binding]; other site 536056009098 cardiolipin synthase 2; Provisional; Region: PRK11263 536056009099 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 536056009100 putative active site [active] 536056009101 catalytic site [active] 536056009102 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 536056009103 putative active site [active] 536056009104 catalytic site [active] 536056009105 Predicted integral membrane protein [Function unknown]; Region: COG0392 536056009106 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 536056009107 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 536056009108 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 536056009109 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 536056009110 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 536056009111 MoaE homodimer interface [polypeptide binding]; other site 536056009112 MoaD interaction [polypeptide binding]; other site 536056009113 active site residues [active] 536056009114 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 536056009115 MoaE interaction surface [polypeptide binding]; other site 536056009116 MoeB interaction surface [polypeptide binding]; other site 536056009117 thiocarboxylated glycine; other site 536056009118 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 536056009119 trimer interface [polypeptide binding]; other site 536056009120 dimer interface [polypeptide binding]; other site 536056009121 putative active site [active] 536056009122 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 536056009123 MPT binding site; other site 536056009124 trimer interface [polypeptide binding]; other site 536056009125 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 536056009126 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 536056009127 FeS/SAM binding site; other site 536056009128 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 536056009129 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 536056009130 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 536056009131 putative substrate binding pocket [chemical binding]; other site 536056009132 dimer interface [polypeptide binding]; other site 536056009133 phosphate binding site [ion binding]; other site 536056009134 excinuclease ABC subunit B; Provisional; Region: PRK05298 536056009135 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 536056009136 ATP binding site [chemical binding]; other site 536056009137 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 536056009138 nucleotide binding region [chemical binding]; other site 536056009139 ATP-binding site [chemical binding]; other site 536056009140 Ultra-violet resistance protein B; Region: UvrB; pfam12344 536056009141 UvrB/uvrC motif; Region: UVR; pfam02151 536056009142 AAA domain; Region: AAA_26; pfam13500 536056009143 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 536056009144 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 536056009145 ADP binding site [chemical binding]; other site 536056009146 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 536056009147 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 536056009148 S-adenosylmethionine binding site [chemical binding]; other site 536056009149 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 536056009150 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 536056009151 substrate-cofactor binding pocket; other site 536056009152 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056009153 catalytic residue [active] 536056009154 biotin synthase; Provisional; Region: PRK15108 536056009155 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 536056009156 FeS/SAM binding site; other site 536056009157 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 536056009158 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 536056009159 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 536056009160 inhibitor-cofactor binding pocket; inhibition site 536056009161 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056009162 catalytic residue [active] 536056009163 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 536056009164 substrate binding site [chemical binding]; other site 536056009165 acyl-CoA thioesterase; Provisional; Region: PRK10531 536056009166 putative pectinesterase; Region: PLN02432; cl01911 536056009167 putative hydratase; Provisional; Region: PRK11413 536056009168 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 536056009169 substrate binding site [chemical binding]; other site 536056009170 ligand binding site [chemical binding]; other site 536056009171 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 536056009172 substrate binding site [chemical binding]; other site 536056009173 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 536056009174 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 536056009175 transmembrane helices; other site 536056009176 PrpF protein; Region: PrpF; pfam04303 536056009177 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536056009178 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056009179 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 536056009180 putative dimerization interface [polypeptide binding]; other site 536056009181 6-phosphogluconolactonase; Provisional; Region: PRK11028 536056009182 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 536056009183 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 536056009184 motif II; other site 536056009185 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 536056009186 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 536056009187 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056009188 Walker A/P-loop; other site 536056009189 ATP binding site [chemical binding]; other site 536056009190 Q-loop/lid; other site 536056009191 ABC transporter signature motif; other site 536056009192 Walker B; other site 536056009193 D-loop; other site 536056009194 H-loop/switch region; other site 536056009195 molybdenum-pterin binding domain; Region: Mop; TIGR00638 536056009196 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 536056009197 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 536056009198 putative PBP binding loops; other site 536056009199 ABC-ATPase subunit interface; other site 536056009200 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 536056009201 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 536056009202 substrate binding pocket [chemical binding]; other site 536056009203 membrane-bound complex binding site; other site 536056009204 hinge residues; other site 536056009205 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 536056009206 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 536056009207 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 536056009208 molybdenum-pterin binding domain; Region: Mop; TIGR00638 536056009209 TOBE domain; Region: TOBE; pfam03459 536056009210 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 536056009211 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 536056009212 Walker A/P-loop; other site 536056009213 ATP binding site [chemical binding]; other site 536056009214 Q-loop/lid; other site 536056009215 ABC transporter signature motif; other site 536056009216 Walker B; other site 536056009217 D-loop; other site 536056009218 H-loop/switch region; other site 536056009219 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056009220 Walker A/P-loop; other site 536056009221 ATP binding site [chemical binding]; other site 536056009222 Q-loop/lid; other site 536056009223 ABC transporter signature motif; other site 536056009224 Walker B; other site 536056009225 D-loop; other site 536056009226 H-loop/switch region; other site 536056009227 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 536056009228 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 536056009229 NAD binding site [chemical binding]; other site 536056009230 homodimer interface [polypeptide binding]; other site 536056009231 active site 536056009232 substrate binding site [chemical binding]; other site 536056009233 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 536056009234 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 536056009235 dimer interface [polypeptide binding]; other site 536056009236 active site 536056009237 galactokinase; Provisional; Region: PRK05101 536056009238 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 536056009239 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 536056009240 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 536056009241 active site 536056009242 catalytic residues [active] 536056009243 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 536056009244 catalytic core [active] 536056009245 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 536056009246 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 536056009247 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 536056009248 YbgS-like protein; Region: YbgS; pfam13985 536056009249 zinc transporter ZitB; Provisional; Region: PRK03557 536056009250 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 536056009251 quinolinate synthetase; Provisional; Region: PRK09375 536056009252 tol-pal system protein YbgF; Provisional; Region: PRK10803 536056009253 Tetratricopeptide repeat; Region: TPR_6; pfam13174 536056009254 Tetratricopeptide repeat; Region: TPR_6; pfam13174 536056009255 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 536056009256 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536056009257 ligand binding site [chemical binding]; other site 536056009258 translocation protein TolB; Provisional; Region: tolB; PRK03629 536056009259 TolB amino-terminal domain; Region: TolB_N; pfam04052 536056009260 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 536056009261 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 536056009262 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 536056009263 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 536056009264 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 536056009265 TolA C-terminal; Region: TolA; pfam06519 536056009266 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 536056009267 colicin uptake protein TolR; Provisional; Region: PRK11024 536056009268 colicin uptake protein TolQ; Provisional; Region: PRK10801 536056009269 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 536056009270 active site 536056009271 hypothetical protein; Provisional; Region: PRK10588 536056009272 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 536056009273 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003 536056009274 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 536056009275 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 536056009276 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 536056009277 alpha-mannosidase; Provisional; Region: PRK09819 536056009278 N-terminal catalytic domain of Escherichia coli alpha-mannosidase MngB and its bacterial homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_EcMngB_like; cd10815 536056009279 active site 536056009280 metal binding site [ion binding]; metal-binding site 536056009281 catalytic site [active] 536056009282 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 536056009283 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 536056009284 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 536056009285 active site 536056009286 phosphorylation site [posttranslational modification] 536056009287 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 536056009288 active site 536056009289 P-loop; other site 536056009290 phosphorylation site [posttranslational modification] 536056009291 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 536056009292 DNA-binding transcriptional repressor MngR; Provisional; Region: PRK09764 536056009293 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056009294 DNA-binding site [nucleotide binding]; DNA binding site 536056009295 UTRA domain; Region: UTRA; pfam07702 536056009296 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 536056009297 CoA binding domain; Region: CoA_binding; smart00881 536056009298 CoA-ligase; Region: Ligase_CoA; pfam00549 536056009299 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 536056009300 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 536056009301 CoA-ligase; Region: Ligase_CoA; pfam00549 536056009302 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 536056009303 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 536056009304 E3 interaction surface; other site 536056009305 lipoyl attachment site [posttranslational modification]; other site 536056009306 e3 binding domain; Region: E3_binding; pfam02817 536056009307 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 536056009308 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 536056009309 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 536056009310 TPP-binding site [chemical binding]; other site 536056009311 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 536056009312 dimer interface [polypeptide binding]; other site 536056009313 PYR/PP interface [polypeptide binding]; other site 536056009314 TPP binding site [chemical binding]; other site 536056009315 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 536056009316 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 536056009317 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 536056009318 L-aspartate oxidase; Provisional; Region: PRK06175 536056009319 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 536056009320 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 536056009321 SdhC subunit interface [polypeptide binding]; other site 536056009322 proximal heme binding site [chemical binding]; other site 536056009323 cardiolipin binding site; other site 536056009324 Iron-sulfur protein interface; other site 536056009325 proximal quinone binding site [chemical binding]; other site 536056009326 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 536056009327 Iron-sulfur protein interface; other site 536056009328 proximal quinone binding site [chemical binding]; other site 536056009329 SdhD (CybS) interface [polypeptide binding]; other site 536056009330 proximal heme binding site [chemical binding]; other site 536056009331 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 536056009332 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 536056009333 dimer interface [polypeptide binding]; other site 536056009334 active site 536056009335 citrylCoA binding site [chemical binding]; other site 536056009336 NADH binding [chemical binding]; other site 536056009337 cationic pore residues; other site 536056009338 oxalacetate/citrate binding site [chemical binding]; other site 536056009339 coenzyme A binding site [chemical binding]; other site 536056009340 catalytic triad [active] 536056009341 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 536056009342 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 536056009343 PapC N-terminal domain; Region: PapC_N; pfam13954 536056009344 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 536056009345 PapC C-terminal domain; Region: PapC_C; pfam13953 536056009346 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 536056009347 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 536056009348 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 536056009349 Fimbrial protein; Region: Fimbrial; pfam00419 536056009350 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 536056009351 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 536056009352 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 536056009353 endonuclease VIII; Provisional; Region: PRK10445 536056009354 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 536056009355 DNA binding site [nucleotide binding] 536056009356 catalytic residue [active] 536056009357 putative catalytic residues [active] 536056009358 H2TH interface [polypeptide binding]; other site 536056009359 intercalation triad [nucleotide binding]; other site 536056009360 substrate specificity determining residue; other site 536056009361 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 536056009362 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 536056009363 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 536056009364 putative active site [active] 536056009365 biotin-dependent carboxylase uncharacterized domain; Region: urea_amlyse_rel; TIGR00724 536056009366 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 536056009367 sensor histidine kinase inhibitor, KipI family; Region: TIGR00370 536056009368 Uncharacterized conserved protein [Function unknown]; Region: COG0327 536056009369 metal-binding protein; Provisional; Region: PRK10799 536056009370 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 536056009371 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 536056009372 putative substrate translocation pore; other site 536056009373 POT family; Region: PTR2; pfam00854 536056009374 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 536056009375 DNA photolyase; Region: DNA_photolyase; pfam00875 536056009376 hypothetical protein; Provisional; Region: PRK10167 536056009377 Uncharacterized conserved protein [Function unknown]; Region: COG3272 536056009378 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 536056009379 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 536056009380 Transposase [DNA replication, recombination, and repair]; Region: COG5433 536056009381 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 536056009382 RHS protein; Region: RHS; pfam03527 536056009383 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 536056009384 PAAR motif; Region: PAAR_motif; cl15808 536056009385 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 536056009386 RHS Repeat; Region: RHS_repeat; pfam05593 536056009387 RHS Repeat; Region: RHS_repeat; pfam05593 536056009388 RHS Repeat; Region: RHS_repeat; pfam05593 536056009389 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 536056009390 RHS Repeat; Region: RHS_repeat; pfam05593 536056009391 RHS Repeat; Region: RHS_repeat; pfam05593 536056009392 RHS protein; Region: RHS; pfam03527 536056009393 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 536056009394 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 536056009395 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 536056009396 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 536056009397 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 536056009398 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 536056009399 sensor protein KdpD; Provisional; Region: PRK10490 536056009400 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 536056009401 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 536056009402 Ligand Binding Site [chemical binding]; other site 536056009403 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 536056009404 GAF domain; Region: GAF_3; pfam13492 536056009405 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 536056009406 dimer interface [polypeptide binding]; other site 536056009407 phosphorylation site [posttranslational modification] 536056009408 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 536056009409 ATP binding site [chemical binding]; other site 536056009410 Mg2+ binding site [ion binding]; other site 536056009411 G-X-G motif; other site 536056009412 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 536056009413 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 536056009414 active site 536056009415 phosphorylation site [posttranslational modification] 536056009416 intermolecular recognition site; other site 536056009417 dimerization interface [polypeptide binding]; other site 536056009418 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 536056009419 DNA binding site [nucleotide binding] 536056009420 ornithine decarboxylase; Provisional; Region: PRK13578 536056009421 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 536056009422 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 536056009423 homodimer interface [polypeptide binding]; other site 536056009424 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056009425 catalytic residue [active] 536056009426 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 536056009427 putrescine transporter; Provisional; Region: potE; PRK10655 536056009428 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 536056009429 phosphoglucomutase, alpha-D-glucose phosphate-specific; Region: pgm; TIGR01132 536056009430 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 536056009431 active site 536056009432 substrate binding site [chemical binding]; other site 536056009433 metal binding site [ion binding]; metal-binding site 536056009434 replication initiation regulator SeqA; Provisional; Region: PRK11187 536056009435 acyl-CoA esterase; Provisional; Region: PRK10673 536056009436 PGAP1-like protein; Region: PGAP1; pfam07819 536056009437 LexA regulated protein; Provisional; Region: PRK11675 536056009438 flavodoxin FldA; Validated; Region: PRK09267 536056009439 ferric uptake regulator; Provisional; Region: fur; PRK09462 536056009440 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 536056009441 metal binding site 2 [ion binding]; metal-binding site 536056009442 putative DNA binding helix; other site 536056009443 metal binding site 1 [ion binding]; metal-binding site 536056009444 dimer interface [polypeptide binding]; other site 536056009445 structural Zn2+ binding site [ion binding]; other site 536056009446 YbfN-like lipoprotein; Region: YbfN; pfam13982 536056009447 outer membrane porin, OprD family; Region: OprD; pfam03573 536056009448 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 536056009449 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 536056009450 active site 536056009451 HIGH motif; other site 536056009452 nucleotide binding site [chemical binding]; other site 536056009453 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 536056009454 KMSKS motif; other site 536056009455 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 536056009456 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 536056009457 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 536056009458 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 536056009459 active site turn [active] 536056009460 phosphorylation site [posttranslational modification] 536056009461 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 536056009462 HPr interaction site; other site 536056009463 glycerol kinase (GK) interaction site [polypeptide binding]; other site 536056009464 active site 536056009465 phosphorylation site [posttranslational modification] 536056009466 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 536056009467 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 536056009468 active site 536056009469 trimer interface [polypeptide binding]; other site 536056009470 allosteric site; other site 536056009471 active site lid [active] 536056009472 hexamer (dimer of trimers) interface [polypeptide binding]; other site 536056009473 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 536056009474 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 536056009475 active site 536056009476 dimer interface [polypeptide binding]; other site 536056009477 MarR family; Region: MarR; pfam01047 536056009478 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 536056009479 ROK family; Region: ROK; pfam00480 536056009480 UMP phosphatase; Provisional; Region: PRK10444 536056009481 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 536056009482 active site 536056009483 motif I; other site 536056009484 motif II; other site 536056009485 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 536056009486 asparagine synthetase B; Provisional; Region: asnB; PRK09431 536056009487 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 536056009488 active site 536056009489 dimer interface [polypeptide binding]; other site 536056009490 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 536056009491 Ligand Binding Site [chemical binding]; other site 536056009492 Molecular Tunnel; other site 536056009493 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 536056009494 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 536056009495 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 536056009496 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 536056009497 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 536056009498 FeS/SAM binding site; other site 536056009499 TRAM domain; Region: TRAM; pfam01938 536056009500 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 536056009501 PhoH-like protein; Region: PhoH; pfam02562 536056009502 metal-binding heat shock protein; Provisional; Region: PRK00016 536056009503 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 536056009504 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 536056009505 Transporter associated domain; Region: CorC_HlyC; smart01091 536056009506 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 536056009507 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 536056009508 putative active site [active] 536056009509 catalytic triad [active] 536056009510 putative dimer interface [polypeptide binding]; other site 536056009511 Transposase domain (DUF772); Region: DUF772; pfam05598 536056009512 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 536056009513 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 536056009514 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 536056009515 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 536056009516 substrate binding pocket [chemical binding]; other site 536056009517 membrane-bound complex binding site; other site 536056009518 hinge residues; other site 536056009519 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536056009520 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 536056009521 dimer interface [polypeptide binding]; other site 536056009522 conserved gate region; other site 536056009523 putative PBP binding loops; other site 536056009524 ABC-ATPase subunit interface; other site 536056009525 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 536056009526 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 536056009527 dimer interface [polypeptide binding]; other site 536056009528 conserved gate region; other site 536056009529 putative PBP binding loops; other site 536056009530 ABC-ATPase subunit interface; other site 536056009531 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 536056009532 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 536056009533 Walker A/P-loop; other site 536056009534 ATP binding site [chemical binding]; other site 536056009535 Q-loop/lid; other site 536056009536 ABC transporter signature motif; other site 536056009537 Walker B; other site 536056009538 D-loop; other site 536056009539 H-loop/switch region; other site 536056009540 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 536056009541 active site 536056009542 tetramer interface [polypeptide binding]; other site 536056009543 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 536056009544 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 536056009545 nucleotide binding site [chemical binding]; other site 536056009546 putative NEF/HSP70 interaction site [polypeptide binding]; other site 536056009547 SBD interface [polypeptide binding]; other site 536056009548 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; cl02542 536056009549 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 536056009550 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 536056009551 Sel1-like repeats; Region: SEL1; smart00671 536056009552 Sel1-like repeats; Region: SEL1; smart00671 536056009553 Sel1 repeat; Region: Sel1; cl02723 536056009554 DnaJ molecular chaperone homology domain; Region: DnaJ; smart00271 536056009555 HSP70 interaction site [polypeptide binding]; other site 536056009556 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 536056009557 Sel1-like repeats; Region: SEL1; smart00671 536056009558 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 536056009559 Sel1-like repeats; Region: SEL1; smart00671 536056009560 Sel1-like repeats; Region: SEL1; smart00671 536056009561 Sel1-like repeats; Region: SEL1; smart00671 536056009562 Sel1-like repeats; Region: SEL1; smart00671 536056009563 Sel1-like repeats; Region: SEL1; smart00671 536056009564 Sel1-like repeats; Region: SEL1; smart00671 536056009565 hypothetical protein; Provisional; Region: PRK11032 536056009566 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 536056009567 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 536056009568 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 536056009569 HIGH motif; other site 536056009570 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 536056009571 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 536056009572 active site 536056009573 KMSKS motif; other site 536056009574 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 536056009575 tRNA binding surface [nucleotide binding]; other site 536056009576 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 536056009577 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 536056009578 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 536056009579 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 536056009580 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 536056009581 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 536056009582 active site 536056009583 (T/H)XGH motif; other site 536056009584 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 536056009585 catalytic core [active] 536056009586 ribosome-associated protein; Provisional; Region: PRK11538 536056009587 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 536056009588 penicillin-binding protein 2; Provisional; Region: PRK10795 536056009589 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 536056009590 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 536056009591 cell wall shape-determining protein; Provisional; Region: PRK10794 536056009592 rare lipoprotein A; Provisional; Region: PRK10672 536056009593 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 536056009594 Sporulation related domain; Region: SPOR; pfam05036 536056009595 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 536056009596 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 536056009597 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 536056009598 hypothetical protein; Provisional; Region: PRK04998 536056009599 lipoate-protein ligase B; Provisional; Region: PRK14342 536056009600 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 536056009601 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056009602 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 536056009603 substrate binding pocket [chemical binding]; other site 536056009604 dimerization interface [polypeptide binding]; other site 536056009605 lipoyl synthase; Provisional; Region: PRK05481 536056009606 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 536056009607 FeS/SAM binding site; other site 536056009608 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 536056009609 chromosome condensation membrane protein; Provisional; Region: PRK14196 536056009610 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 536056009611 DNA-binding site [nucleotide binding]; DNA binding site 536056009612 RNA-binding motif; other site 536056009613 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 536056009614 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 536056009615 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 536056009616 two-component response regulator DpiA; Provisional; Region: dpiA; PRK10046 536056009617 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 536056009618 active site 536056009619 phosphorylation site [posttranslational modification] 536056009620 intermolecular recognition site; other site 536056009621 dimerization interface [polypeptide binding]; other site 536056009622 Transcriptional regulator; Region: CitT; pfam12431 536056009623 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 536056009624 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 536056009625 putative active site [active] 536056009626 heme pocket [chemical binding]; other site 536056009627 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 536056009628 ATP binding site [chemical binding]; other site 536056009629 Mg2+ binding site [ion binding]; other site 536056009630 G-X-G motif; other site 536056009631 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 536056009632 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 536056009633 putative active site [active] 536056009634 (T/H)XGH motif; other site 536056009635 Citrate lyase, gamma subunit [Energy production and conversion]; Region: CitD; COG3052 536056009636 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 536056009637 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 536056009638 Phosphoribosyl-dephospho-CoA transferase (holo-ACP synthetase) [Coenzyme metabolism / Lipid metabolism]; Region: CitX; COG3697 536056009639 triphosphoribosyl-dephospho-CoA synthase; Provisional; Region: citG; PRK10096 536056009640 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 536056009641 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 536056009642 transmembrane helices; other site 536056009643 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 536056009644 B1 nucleotide binding pocket [chemical binding]; other site 536056009645 B2 nucleotide binding pocket [chemical binding]; other site 536056009646 CAS motifs; other site 536056009647 active site 536056009648 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 536056009649 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 536056009650 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 536056009651 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 536056009652 NAD binding site [chemical binding]; other site 536056009653 catalytic Zn binding site [ion binding]; other site 536056009654 structural Zn binding site [ion binding]; other site 536056009655 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 536056009656 Ligand Binding Site [chemical binding]; other site 536056009657 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 536056009658 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 536056009659 catalytic residue [active] 536056009660 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 536056009661 catalytic residues [active] 536056009662 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 536056009663 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536056009664 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 536056009665 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 536056009666 dimer interface [polypeptide binding]; other site 536056009667 decamer (pentamer of dimers) interface [polypeptide binding]; other site 536056009668 catalytic triad [active] 536056009669 peroxidatic and resolving cysteines [active] 536056009670 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 536056009671 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 536056009672 dimerization domain [polypeptide binding]; other site 536056009673 dimer interface [polypeptide binding]; other site 536056009674 catalytic residues [active] 536056009675 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 536056009676 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056009677 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 536056009678 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 536056009679 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 536056009680 Active Sites [active] 536056009681 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 536056009682 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 536056009683 ParB-like nuclease domain; Region: ParBc; pfam02195 536056009684 methionine aminotransferase; Validated; Region: PRK09082 536056009685 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 536056009686 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056009687 homodimer interface [polypeptide binding]; other site 536056009688 catalytic residue [active] 536056009689 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 536056009690 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 536056009691 putative active site [active] 536056009692 metal binding site [ion binding]; metal-binding site 536056009693 Uncharacterized small protein [Function unknown]; Region: COG2879 536056009694 carbon starvation protein A; Provisional; Region: PRK15015 536056009695 Carbon starvation protein CstA; Region: CstA; pfam02554 536056009696 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 536056009697 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 536056009698 CoenzymeA binding site [chemical binding]; other site 536056009699 subunit interaction site [polypeptide binding]; other site 536056009700 PHB binding site; other site 536056009701 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 536056009702 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 536056009703 putative NAD(P) binding site [chemical binding]; other site 536056009704 active site 536056009705 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 536056009706 hydrophobic substrate binding pocket; other site 536056009707 Isochorismatase family; Region: Isochorismatase; pfam00857 536056009708 active site 536056009709 conserved cis-peptide bond; other site 536056009710 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 536056009711 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 536056009712 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 536056009713 acyl-activating enzyme (AAE) consensus motif; other site 536056009714 active site 536056009715 AMP binding site [chemical binding]; other site 536056009716 substrate binding site [chemical binding]; other site 536056009717 isochorismate synthase EntC; Provisional; Region: PRK15016 536056009718 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 536056009719 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 536056009720 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 536056009721 siderophore binding site; other site 536056009722 enterobactin exporter EntS; Provisional; Region: PRK10489 536056009723 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 536056009724 putative substrate translocation pore; other site 536056009725 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 536056009726 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 536056009727 ABC-ATPase subunit interface; other site 536056009728 dimer interface [polypeptide binding]; other site 536056009729 putative PBP binding regions; other site 536056009730 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 536056009731 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 536056009732 ABC-ATPase subunit interface; other site 536056009733 dimer interface [polypeptide binding]; other site 536056009734 putative PBP binding regions; other site 536056009735 iron-enterobactin transporter ATP-binding protein; Provisional; Region: PRK10253 536056009736 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 536056009737 Walker A/P-loop; other site 536056009738 ATP binding site [chemical binding]; other site 536056009739 Q-loop/lid; other site 536056009740 ABC transporter signature motif; other site 536056009741 Walker B; other site 536056009742 D-loop; other site 536056009743 H-loop/switch region; other site 536056009744 LPS O-antigen length regulator; Provisional; Region: PRK10381 536056009745 Chain length determinant protein; Region: Wzz; pfam02706 536056009746 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 536056009747 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 536056009748 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 536056009749 acyl-activating enzyme (AAE) consensus motif; other site 536056009750 AMP binding site [chemical binding]; other site 536056009751 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 536056009752 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 536056009753 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 536056009754 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 536056009755 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 536056009756 outer membrane receptor FepA; Provisional; Region: PRK13524 536056009757 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 536056009758 N-terminal plug; other site 536056009759 ligand-binding site [chemical binding]; other site 536056009760 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional; Region: PRK10251 536056009761 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 536056009762 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 536056009763 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 536056009764 Hok/gef family; Region: HOK_GEF; pfam01848 536056009765 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 536056009766 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 536056009767 Protein of unknown function (DUF1158); Region: DUF1158; pfam06643 536056009768 hypothetical protein; Provisional; Region: PRK10250 536056009769 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 536056009770 dimer interface [polypeptide binding]; other site 536056009771 FMN binding site [chemical binding]; other site 536056009772 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 536056009773 Mechanosensitive ion channel; Region: MS_channel; pfam00924 536056009774 phenylalanine transporter; Provisional; Region: PRK10249 536056009775 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 536056009776 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 536056009777 HlyD family secretion protein; Region: HlyD_3; pfam13437 536056009778 periplasmic copper-binding protein; Provisional; Region: PRK09838 536056009779 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 536056009780 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 536056009781 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 536056009782 active site 536056009783 phosphorylation site [posttranslational modification] 536056009784 intermolecular recognition site; other site 536056009785 dimerization interface [polypeptide binding]; other site 536056009786 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 536056009787 DNA binding site [nucleotide binding] 536056009788 sensor kinase CusS; Provisional; Region: PRK09835 536056009789 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 536056009790 dimerization interface [polypeptide binding]; other site 536056009791 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 536056009792 dimer interface [polypeptide binding]; other site 536056009793 phosphorylation site [posttranslational modification] 536056009794 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 536056009795 ATP binding site [chemical binding]; other site 536056009796 Mg2+ binding site [ion binding]; other site 536056009797 G-X-G motif; other site 536056009798 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 536056009799 active site 536056009800 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 536056009801 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 536056009802 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 536056009803 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 536056009804 TPR motif; other site 536056009805 binding surface 536056009806 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 536056009807 hypothetical protein; Provisional; Region: PRK09936 536056009808 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 536056009809 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056009810 outer membrane protease; Reviewed; Region: PRK10993 536056009811 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536056009812 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056009813 Methyltransferase domain; Region: Methyltransf_12; pfam08242 536056009814 S-adenosylmethionine binding site [chemical binding]; other site 536056009815 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 536056009816 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 536056009817 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 536056009818 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 536056009819 Bor protein; Region: Lambda_Bor; pfam06291 536056009820 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 536056009821 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 536056009822 catalytic residues [active] 536056009823 Lysis protein S; Region: Lysis_S; pfam04971 536056009824 Transposase domain (DUF772); Region: DUF772; pfam05598 536056009825 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 536056009826 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 536056009827 transcriptional regulator FimZ; Provisional; Region: PRK09935 536056009828 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 536056009829 active site 536056009830 phosphorylation site [posttranslational modification] 536056009831 intermolecular recognition site; other site 536056009832 dimerization interface [polypeptide binding]; other site 536056009833 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 536056009834 DNA binding residues [nucleotide binding] 536056009835 dimerization interface [polypeptide binding]; other site 536056009836 fimbrial-like adhesin protein SfmF; Provisional; Region: PRK09934 536056009837 fimbrial-like adhesin; Provisional; Region: fimH; PRK15199 536056009838 outer membrane usher protein FimD; Provisional; Region: PRK15198 536056009839 PapC N-terminal domain; Region: PapC_N; pfam13954 536056009840 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 536056009841 PapC C-terminal domain; Region: PapC_C; pfam13953 536056009842 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 536056009843 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 536056009844 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 536056009845 type-1 fimbrial protein subunit A; Provisional; Region: PRK15194 536056009846 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 536056009847 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 536056009848 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 536056009849 homodimer interface [polypeptide binding]; other site 536056009850 NADP binding site [chemical binding]; other site 536056009851 substrate binding site [chemical binding]; other site 536056009852 ribosome-associated protein; Provisional; Region: PRK11507 536056009853 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 536056009854 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 536056009855 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 536056009856 active site 536056009857 HIGH motif; other site 536056009858 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 536056009859 KMSKS motif; other site 536056009860 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 536056009861 tRNA binding surface [nucleotide binding]; other site 536056009862 anticodon binding site; other site 536056009863 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 536056009864 substrate binding site [chemical binding]; other site 536056009865 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 536056009866 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 536056009867 putative active site [active] 536056009868 putative metal binding site [ion binding]; other site 536056009869 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 536056009870 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 536056009871 ATP-grasp domain; Region: ATP-grasp; pfam02222 536056009872 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 536056009873 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 536056009874 putative substrate binding site [chemical binding]; other site 536056009875 nucleotide binding site [chemical binding]; other site 536056009876 nucleotide binding site [chemical binding]; other site 536056009877 homodimer interface [polypeptide binding]; other site 536056009878 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 536056009879 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 536056009880 membrane protein FdrA; Validated; Region: PRK06091 536056009881 CoA binding domain; Region: CoA_binding; pfam02629 536056009882 CoA-ligase; Region: Ligase_CoA; pfam00549 536056009883 ureidoglycolate dehydrogenase; Provisional; Region: PRK15025 536056009884 allantoate amidohydrolase; Region: AllC; TIGR03176 536056009885 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 536056009886 active site 536056009887 metal binding site [ion binding]; metal-binding site 536056009888 dimer interface [polypeptide binding]; other site 536056009889 putative allantoin catabolism protein; Region: ura-cupin; TIGR03214 536056009890 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 536056009891 Cupin domain; Region: Cupin_2; cl17218 536056009892 glycerate kinase II; Provisional; Region: PRK09932 536056009893 putative uracil/xanthine transporter; Provisional; Region: PRK11412 536056009894 allantoinase; Provisional; Region: PRK08044 536056009895 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 536056009896 active site 536056009897 nucleobase-cation-symport-1 (NCS1) transporters; solute-binding domain; Region: SLC-NCS1sbd; cd10323 536056009898 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 536056009899 Na binding site [ion binding]; other site 536056009900 substrate binding site [chemical binding]; other site 536056009901 tartronate semialdehyde reductase; Provisional; Region: PRK15059 536056009902 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 536056009903 hydroxypyruvate isomerase; Provisional; Region: PRK09997 536056009904 glyoxylate carboligase; Provisional; Region: PRK11269 536056009905 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 536056009906 PYR/PP interface [polypeptide binding]; other site 536056009907 dimer interface [polypeptide binding]; other site 536056009908 TPP binding site [chemical binding]; other site 536056009909 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 536056009910 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 536056009911 TPP-binding site [chemical binding]; other site 536056009912 DNA-binding transcriptional repressor AllR; Provisional; Region: PRK10163 536056009913 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 536056009914 Bacterial transcriptional regulator; Region: IclR; pfam01614 536056009915 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 536056009916 ureidoglycolate hydrolase; Provisional; Region: PRK03606 536056009917 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 536056009918 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056009919 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 536056009920 dimerization interface [polypeptide binding]; other site 536056009921 Predicted ATPase [General function prediction only]; Region: COG2603 536056009922 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 536056009923 active site residue [active] 536056009924 Winged helix-turn helix; Region: HTH_29; pfam13551 536056009925 Helix-turn-helix domain; Region: HTH_28; pfam13518 536056009926 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 536056009927 RHS protein; Region: RHS; pfam03527 536056009928 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 536056009929 PAAR motif; Region: PAAR_motif; cl15808 536056009930 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 536056009931 RHS Repeat; Region: RHS_repeat; pfam05593 536056009932 RHS Repeat; Region: RHS_repeat; pfam05593 536056009933 RHS Repeat; Region: RHS_repeat; pfam05593 536056009934 RHS Repeat; Region: RHS_repeat; pfam05593 536056009935 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 536056009936 RHS Repeat; Region: RHS_repeat; pfam05593 536056009937 RHS Repeat; Region: RHS_repeat; pfam05593 536056009938 RHS protein; Region: RHS; pfam03527 536056009939 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 536056009940 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 536056009941 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 536056009942 FtsX-like permease family; Region: FtsX; pfam02687 536056009943 FtsX-like permease family; Region: FtsX; pfam02687 536056009944 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 536056009945 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536056009946 Walker A/P-loop; other site 536056009947 ATP binding site [chemical binding]; other site 536056009948 Q-loop/lid; other site 536056009949 ABC transporter signature motif; other site 536056009950 Walker B; other site 536056009951 D-loop; other site 536056009952 H-loop/switch region; other site 536056009953 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 536056009954 active site 536056009955 catalytic triad [active] 536056009956 oxyanion hole [active] 536056009957 switch loop; other site 536056009958 oxidoreductase; Provisional; Region: PRK08017 536056009959 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 536056009960 NADP binding site [chemical binding]; other site 536056009961 active site 536056009962 steroid binding site; other site 536056009963 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 536056009964 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 536056009965 Uncharacterized protein family (UPF0014); Region: UPF0014; pfam03649 536056009966 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 536056009967 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056009968 Walker A/P-loop; other site 536056009969 ATP binding site [chemical binding]; other site 536056009970 Q-loop/lid; other site 536056009971 ABC transporter signature motif; other site 536056009972 Walker B; other site 536056009973 D-loop; other site 536056009974 H-loop/switch region; other site 536056009975 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 536056009976 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 536056009977 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 536056009978 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 536056009979 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 536056009980 DNA binding residues [nucleotide binding] 536056009981 dimer interface [polypeptide binding]; other site 536056009982 copper binding site [ion binding]; other site 536056009983 amino acid transporter; Region: 2A0306; TIGR00909 536056009984 glutaminase; Reviewed; Region: PRK12356 536056009985 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 536056009986 copper exporting ATPase; Provisional; Region: copA; PRK10671 536056009987 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 536056009988 metal-binding site [ion binding] 536056009989 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 536056009990 metal-binding site [ion binding] 536056009991 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 536056009992 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 536056009993 motif II; other site 536056009994 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 536056009995 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 536056009996 non-specific DNA binding site [nucleotide binding]; other site 536056009997 salt bridge; other site 536056009998 sequence-specific DNA binding site [nucleotide binding]; other site 536056009999 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 536056010000 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 536056010001 putative deacylase active site [active] 536056010002 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 536056010003 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 536056010004 active site 536056010005 metal binding site [ion binding]; metal-binding site 536056010006 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 536056010007 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 536056010008 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536056010009 putative substrate translocation pore; other site 536056010010 putative cation:proton antiport protein; Provisional; Region: PRK10669 536056010011 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 536056010012 TrkA-N domain; Region: TrkA_N; pfam02254 536056010013 inosine/guanosine kinase; Provisional; Region: PRK15074 536056010014 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 536056010015 acetyl esterase; Provisional; Region: PRK10162 536056010016 ferrochelatase; Region: hemH; TIGR00109 536056010017 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 536056010018 C-terminal domain interface [polypeptide binding]; other site 536056010019 active site 536056010020 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 536056010021 active site 536056010022 N-terminal domain interface [polypeptide binding]; other site 536056010023 adenylate kinase; Reviewed; Region: adk; PRK00279 536056010024 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 536056010025 AMP-binding site [chemical binding]; other site 536056010026 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 536056010027 heat shock protein 90; Provisional; Region: PRK05218 536056010028 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 536056010029 ATP binding site [chemical binding]; other site 536056010030 Mg2+ binding site [ion binding]; other site 536056010031 G-X-G motif; other site 536056010032 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 536056010033 RecR protein; Region: RecR; pfam02132 536056010034 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 536056010035 putative active site [active] 536056010036 putative metal-binding site [ion binding]; other site 536056010037 tetramer interface [polypeptide binding]; other site 536056010038 hypothetical protein; Validated; Region: PRK00153 536056010039 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 536056010040 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 536056010041 Walker A motif; other site 536056010042 ATP binding site [chemical binding]; other site 536056010043 Walker B motif; other site 536056010044 DNA polymerase III subunit delta'; Validated; Region: PRK08485 536056010045 arginine finger; other site 536056010046 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 536056010047 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 536056010048 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 536056010049 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536056010050 active site 536056010051 hypothetical protein; Provisional; Region: PRK10527 536056010052 primosomal replication protein N''; Provisional; Region: PRK10093 536056010053 hypothetical protein; Provisional; Region: PRK11038 536056010054 hypothetical protein; Provisional; Region: PRK11281 536056010055 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 536056010056 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 536056010057 Mechanosensitive ion channel; Region: MS_channel; pfam00924 536056010058 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 536056010059 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536056010060 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 536056010061 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 536056010062 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536056010063 HlyD family secretion protein; Region: HlyD_3; pfam13437 536056010064 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 536056010065 Protein export membrane protein; Region: SecD_SecF; cl14618 536056010066 Protein export membrane protein; Region: SecD_SecF; cl14618 536056010067 Biofilm formation regulator YbaJ; Region: YbaJ; pfam10757 536056010068 gene expression modulator; Provisional; Region: PRK10945 536056010069 maltose O-acetyltransferase; Provisional; Region: PRK10092 536056010070 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 536056010071 active site 536056010072 substrate binding site [chemical binding]; other site 536056010073 trimer interface [polypeptide binding]; other site 536056010074 CoA binding site [chemical binding]; other site 536056010075 sigma70 family sigma factor YlaC; Region: YlaC; pfam10777 536056010076 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 536056010077 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 536056010078 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 536056010079 Uncharacterized conserved protein [Function unknown]; Region: COG5507 536056010080 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 536056010081 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 536056010082 DNA binding site [nucleotide binding] 536056010083 active site 536056010084 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 536056010085 acyl-CoA thioesterase II; Provisional; Region: PRK10526 536056010086 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 536056010087 active site 536056010088 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 536056010089 catalytic triad [active] 536056010090 dimer interface [polypeptide binding]; other site 536056010091 ammonium transporter; Provisional; Region: PRK10666 536056010092 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 536056010093 Nitrogen regulatory protein P-II; Region: P-II; smart00938 536056010094 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 536056010095 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536056010096 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 536056010097 Walker A/P-loop; other site 536056010098 ATP binding site [chemical binding]; other site 536056010099 Q-loop/lid; other site 536056010100 ABC transporter signature motif; other site 536056010101 Walker B; other site 536056010102 D-loop; other site 536056010103 H-loop/switch region; other site 536056010104 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 536056010105 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 536056010106 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056010107 Walker A/P-loop; other site 536056010108 ATP binding site [chemical binding]; other site 536056010109 Q-loop/lid; other site 536056010110 ABC transporter signature motif; other site 536056010111 Walker B; other site 536056010112 D-loop; other site 536056010113 H-loop/switch region; other site 536056010114 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 536056010115 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 536056010116 putative DNA binding site [nucleotide binding]; other site 536056010117 putative Zn2+ binding site [ion binding]; other site 536056010118 AsnC family; Region: AsnC_trans_reg; pfam01037 536056010119 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 536056010120 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 536056010121 active site 536056010122 motif I; other site 536056010123 motif II; other site 536056010124 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 536056010125 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 536056010126 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 536056010127 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 536056010128 Ligand Binding Site [chemical binding]; other site 536056010129 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 536056010130 active site 536056010131 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 536056010132 periplasmic folding chaperone; Provisional; Region: PRK10788 536056010133 SurA N-terminal domain; Region: SurA_N_3; cl07813 536056010134 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 536056010135 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 536056010136 IHF dimer interface [polypeptide binding]; other site 536056010137 IHF - DNA interface [nucleotide binding]; other site 536056010138 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 536056010139 Found in ATP-dependent protease La (LON); Region: LON; smart00464 536056010140 Found in ATP-dependent protease La (LON); Region: LON; smart00464 536056010141 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 536056010142 Walker A motif; other site 536056010143 ATP binding site [chemical binding]; other site 536056010144 Walker B motif; other site 536056010145 arginine finger; other site 536056010146 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 536056010147 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 536056010148 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 536056010149 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 536056010150 Walker A motif; other site 536056010151 ATP binding site [chemical binding]; other site 536056010152 Walker B motif; other site 536056010153 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 536056010154 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 536056010155 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 536056010156 oligomer interface [polypeptide binding]; other site 536056010157 active site residues [active] 536056010158 trigger factor; Provisional; Region: tig; PRK01490 536056010159 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 536056010160 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 536056010161 transcriptional regulator BolA; Provisional; Region: PRK11628 536056010162 hypothetical protein; Provisional; Region: PRK11627 536056010163 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 536056010164 muropeptide transporter; Reviewed; Region: ampG; PRK11902 536056010165 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 536056010166 putative substrate translocation pore; other site 536056010167 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 536056010168 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 536056010169 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 536056010170 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 536056010171 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 536056010172 D-pathway; other site 536056010173 Putative ubiquinol binding site [chemical binding]; other site 536056010174 Low-spin heme (heme b) binding site [chemical binding]; other site 536056010175 Putative water exit pathway; other site 536056010176 Binuclear center (heme o3/CuB) [ion binding]; other site 536056010177 K-pathway; other site 536056010178 Putative proton exit pathway; other site 536056010179 Ubiquinol oxidase subunit III subfamily. 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...; Region: Ubiquinol_oxidase_III; cd02863 536056010180 Subunit I/III interface [polypeptide binding]; other site 536056010181 Subunit III/IV interface [polypeptide binding]; other site 536056010182 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 536056010183 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 536056010184 UbiA prenyltransferase family; Region: UbiA; pfam01040 536056010185 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 536056010186 Major Facilitator Superfamily; Region: MFS_1; pfam07690 536056010187 putative substrate translocation pore; other site 536056010188 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 536056010189 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 536056010190 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 536056010191 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 536056010192 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 536056010193 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 536056010194 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 536056010195 conserved cys residue [active] 536056010196 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 536056010197 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 536056010198 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 536056010199 Ligand Binding Site [chemical binding]; other site 536056010200 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 536056010201 active site residue [active] 536056010202 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 536056010203 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 536056010204 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 536056010205 substrate binding pocket [chemical binding]; other site 536056010206 chain length determination region; other site 536056010207 substrate-Mg2+ binding site; other site 536056010208 catalytic residues [active] 536056010209 aspartate-rich region 1; other site 536056010210 active site lid residues [active] 536056010211 aspartate-rich region 2; other site 536056010212 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 536056010213 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 536056010214 TPP-binding site; other site 536056010215 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 536056010216 PYR/PP interface [polypeptide binding]; other site 536056010217 dimer interface [polypeptide binding]; other site 536056010218 TPP binding site [chemical binding]; other site 536056010219 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 536056010220 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 536056010221 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 536056010222 active site 536056010223 catalytic tetrad [active] 536056010224 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 536056010225 tetramer interfaces [polypeptide binding]; other site 536056010226 binuclear metal-binding site [ion binding]; other site 536056010227 thiamine monophosphate kinase; Provisional; Region: PRK05731 536056010228 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 536056010229 ATP binding site [chemical binding]; other site 536056010230 dimerization interface [polypeptide binding]; other site 536056010231 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 536056010232 putative RNA binding site [nucleotide binding]; other site 536056010233 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 536056010234 homopentamer interface [polypeptide binding]; other site 536056010235 active site 536056010236 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 536056010237 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 536056010238 catalytic motif [active] 536056010239 Zn binding site [ion binding]; other site 536056010240 riboflavin-specific deaminase C-terminal domain; Region: ribD_Cterm; TIGR00227 536056010241 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 536056010242 ATP cone domain; Region: ATP-cone; pfam03477 536056010243 hypothetical protein; Provisional; Region: PRK11530 536056010244 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 536056010245 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 536056010246 active site 536056010247 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 536056010248 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 536056010249 Protein export membrane protein; Region: SecD_SecF; pfam02355 536056010250 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 536056010251 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 536056010252 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 536056010253 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 536056010254 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 536056010255 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 536056010256 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 536056010257 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 536056010258 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 536056010259 acyl carrier protein phosphodiesterase; Provisional; Region: PRK10045 536056010260 maltodextrin glucosidase; Provisional; Region: PRK10785 536056010261 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 536056010262 homodimer interface [polypeptide binding]; other site 536056010263 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 536056010264 active site 536056010265 homodimer interface [polypeptide binding]; other site 536056010266 catalytic site [active] 536056010267 putative proline-specific permease; Provisional; Region: proY; PRK10580 536056010268 Spore germination protein; Region: Spore_permease; cl17796 536056010269 branched-chain amino acid transport system 2 carrier protein BrnQ; Provisional; Region: PRK15433 536056010270 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 536056010271 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 536056010272 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 536056010273 putative active site [active] 536056010274 heme pocket [chemical binding]; other site 536056010275 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 536056010276 dimer interface [polypeptide binding]; other site 536056010277 phosphorylation site [posttranslational modification] 536056010278 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 536056010279 ATP binding site [chemical binding]; other site 536056010280 Mg2+ binding site [ion binding]; other site 536056010281 G-X-G motif; other site 536056010282 transcriptional regulator PhoB; Provisional; Region: PRK10161 536056010283 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 536056010284 active site 536056010285 phosphorylation site [posttranslational modification] 536056010286 intermolecular recognition site; other site 536056010287 dimerization interface [polypeptide binding]; other site 536056010288 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 536056010289 DNA binding site [nucleotide binding] 536056010290 exonuclease subunit SbcD; Provisional; Region: PRK10966 536056010291 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 536056010292 active site 536056010293 metal binding site [ion binding]; metal-binding site 536056010294 DNA binding site [nucleotide binding] 536056010295 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 536056010296 exonuclease subunit SbcC; Provisional; Region: PRK10246 536056010297 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056010298 Walker A/P-loop; other site 536056010299 ATP binding site [chemical binding]; other site 536056010300 Q-loop/lid; other site 536056010301 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056010302 ABC transporter signature motif; other site 536056010303 Walker B; other site 536056010304 D-loop; other site 536056010305 H-loop/switch region; other site 536056010306 MFS transport protein AraJ; Provisional; Region: PRK10091 536056010307 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 536056010308 putative substrate translocation pore; other site 536056010309 fructokinase; Reviewed; Region: PRK09557 536056010310 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 536056010311 nucleotide binding site [chemical binding]; other site 536056010312 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 536056010313 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 536056010314 hypothetical protein; Provisional; Region: PRK10579 536056010315 hypothetical protein; Provisional; Region: PRK10481 536056010316 hypothetical protein; Provisional; Region: PRK10380 536056010317 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 536056010318 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 536056010319 ADP binding site [chemical binding]; other site 536056010320 magnesium binding site [ion binding]; other site 536056010321 putative shikimate binding site; other site 536056010322 hypothetical protein; Validated; Region: PRK00124 536056010323 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 536056010324 pyrroline-5-carboxylate reductase; Region: PLN02688 536056010325 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 536056010326 MASE2 domain; Region: MASE2; pfam05230 536056010327 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 536056010328 metal binding site [ion binding]; metal-binding site 536056010329 active site 536056010330 I-site; other site 536056010331 hypothetical protein; Provisional; Region: PRK11505 536056010332 psiF repeat; Region: PsiF_repeat; pfam07769 536056010333 psiF repeat; Region: PsiF_repeat; pfam07769 536056010334 alkaline phosphatase; Provisional; Region: PRK10518 536056010335 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 536056010336 dimer interface [polypeptide binding]; other site 536056010337 active site 536056010338 anti-RssB factor; Provisional; Region: PRK10244 536056010339 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 536056010340 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 536056010341 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 536056010342 Protein of unknown function (DUF2754); Region: DUF2754; pfam10953 536056010343 Protein of unknown function (DUF2755); Region: DUF2755; pfam10954 536056010344 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 536056010345 microcin B17 transporter; Reviewed; Region: PRK11098 536056010346 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 536056010347 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 536056010348 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 536056010349 Transposase; Region: HTH_Tnp_1; cl17663 536056010350 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 536056010351 putative transposase OrfB; Reviewed; Region: PHA02517 536056010352 HTH-like domain; Region: HTH_21; pfam13276 536056010353 Integrase core domain; Region: rve; pfam00665 536056010354 Integrase core domain; Region: rve_2; pfam13333 536056010355 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 536056010356 dimer interface [polypeptide binding]; other site 536056010357 active site 536056010358 Schiff base residues; other site 536056010359 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 536056010360 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 536056010361 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 536056010362 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 536056010363 dimer interface [polypeptide binding]; other site 536056010364 conserved gate region; other site 536056010365 putative PBP binding loops; other site 536056010366 ABC-ATPase subunit interface; other site 536056010367 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 536056010368 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 536056010369 Walker A/P-loop; other site 536056010370 ATP binding site [chemical binding]; other site 536056010371 Q-loop/lid; other site 536056010372 ABC transporter signature motif; other site 536056010373 Walker B; other site 536056010374 D-loop; other site 536056010375 H-loop/switch region; other site 536056010376 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 536056010377 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 536056010378 substrate binding pocket [chemical binding]; other site 536056010379 membrane-bound complex binding site; other site 536056010380 hinge residues; other site 536056010381 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 536056010382 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 536056010383 DXD motif; other site 536056010384 IS2 transposase TnpB; Reviewed; Region: PRK09409 536056010385 HTH-like domain; Region: HTH_21; pfam13276 536056010386 Integrase core domain; Region: rve; pfam00665 536056010387 Integrase core domain; Region: rve_3; pfam13683 536056010388 IS2 repressor TnpA; Reviewed; Region: PRK09413 536056010389 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 536056010390 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 536056010391 putative trimer interface [polypeptide binding]; other site 536056010392 putative CoA binding site [chemical binding]; other site 536056010393 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 536056010394 putative metal binding site [ion binding]; other site 536056010395 putative homodimer interface [polypeptide binding]; other site 536056010396 putative homotetramer interface [polypeptide binding]; other site 536056010397 putative homodimer-homodimer interface [polypeptide binding]; other site 536056010398 putative allosteric switch controlling residues; other site 536056010399 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 536056010400 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 536056010401 substrate binding site [chemical binding]; other site 536056010402 catalytic Zn binding site [ion binding]; other site 536056010403 NAD binding site [chemical binding]; other site 536056010404 structural Zn binding site [ion binding]; other site 536056010405 dimer interface [polypeptide binding]; other site 536056010406 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 536056010407 S-formylglutathione hydrolase; Region: PLN02442 536056010408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 536056010409 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 536056010410 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 536056010411 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 536056010412 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 536056010413 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 536056010414 active site 536056010415 catalytic residues [active] 536056010416 metal binding site [ion binding]; metal-binding site 536056010417 DmpG-like communication domain; Region: DmpG_comm; pfam07836 536056010418 acetaldehyde dehydrogenase; Validated; Region: PRK08300 536056010419 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 536056010420 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 536056010421 2-keto-4-pentenoate hydratase; Provisional; Region: mhpD; PRK11342 536056010422 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 536056010423 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 536056010424 Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB), which catalyzes the oxidization and subsequent ring-opening of 2,3-dihydroxyphenylpropionate; Region: MhpB_like; cd07365 536056010425 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 536056010426 putative active site [active] 536056010427 Fe(II) binding site [ion binding]; other site 536056010428 putative dimer interface [polypeptide binding]; other site 536056010429 putative tetramer interface [polypeptide binding]; other site 536056010430 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 536056010431 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 536056010432 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 536056010433 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 536056010434 Bacterial transcriptional regulator; Region: IclR; pfam01614 536056010435 lac repressor; Reviewed; Region: lacI; PRK09526 536056010436 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536056010437 DNA binding site [nucleotide binding] 536056010438 domain linker motif; other site 536056010439 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 536056010440 ligand binding site [chemical binding]; other site 536056010441 dimerization interface (open form) [polypeptide binding]; other site 536056010442 dimerization interface (closed form) [polypeptide binding]; other site 536056010443 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 536056010444 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 536056010445 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 536056010446 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 536056010447 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 536056010448 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 536056010449 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 536056010450 putative substrate translocation pore; other site 536056010451 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 536056010452 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 536056010453 active site 536056010454 substrate binding site [chemical binding]; other site 536056010455 trimer interface [polypeptide binding]; other site 536056010456 CoA binding site [chemical binding]; other site 536056010457 putative cyanate transporter; Provisional; Region: cynX; PRK09705 536056010458 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 536056010459 Cyanate lyase [Inorganic ion transport and metabolism]; Region: CynS; COG1513 536056010460 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 536056010461 oligomer interface [polypeptide binding]; other site 536056010462 active site 536056010463 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 536056010464 active site clefts [active] 536056010465 zinc binding site [ion binding]; other site 536056010466 dimer interface [polypeptide binding]; other site 536056010467 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 536056010468 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056010469 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 536056010470 dimerization interface [polypeptide binding]; other site 536056010471 cytosine deaminase; Provisional; Region: PRK09230 536056010472 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 536056010473 active site 536056010474 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 536056010475 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 536056010476 Na binding site [ion binding]; other site 536056010477 putative substrate binding site [chemical binding]; other site 536056010478 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 536056010479 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 536056010480 acyl-activating enzyme (AAE) consensus motif; other site 536056010481 putative AMP binding site [chemical binding]; other site 536056010482 putative active site [active] 536056010483 putative CoA binding site [chemical binding]; other site 536056010484 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 536056010485 2-methylcitrate dehydratase; Region: prpD; TIGR02330 536056010486 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 536056010487 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 536056010488 dimer interface [polypeptide binding]; other site 536056010489 active site 536056010490 citrylCoA binding site [chemical binding]; other site 536056010491 oxalacetate/citrate binding site [chemical binding]; other site 536056010492 coenzyme A binding site [chemical binding]; other site 536056010493 catalytic triad [active] 536056010494 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 536056010495 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 536056010496 tetramer interface [polypeptide binding]; other site 536056010497 active site 536056010498 Mg2+/Mn2+ binding site [ion binding]; other site 536056010499 propionate catabolism operon regulatory protein PrpR; Provisional; Region: PRK15424 536056010500 Propionate catabolism activator; Region: PrpR_N; pfam06506 536056010501 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 536056010502 Walker A motif; other site 536056010503 ATP binding site [chemical binding]; other site 536056010504 Walker B motif; other site 536056010505 arginine finger; other site 536056010506 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536056010507 hypothetical protein; Provisional; Region: PRK09929 536056010508 The Resistance to Homoserine/Threonine (RhtB) Family protein; Region: 2A76; TIGR00949 536056010509 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 536056010510 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 536056010511 putative NAD(P) binding site [chemical binding]; other site 536056010512 putative substrate binding site [chemical binding]; other site 536056010513 catalytic Zn binding site [ion binding]; other site 536056010514 structural Zn binding site [ion binding]; other site 536056010515 dimer interface [polypeptide binding]; other site 536056010516 putative deaminase; Validated; Region: PRK06846 536056010517 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 536056010518 active site 536056010519 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 536056010520 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 536056010521 putative substrate binding site [chemical binding]; other site 536056010522 nucleotide binding site [chemical binding]; other site 536056010523 nucleotide binding site [chemical binding]; other site 536056010524 homodimer interface [polypeptide binding]; other site 536056010525 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 536056010526 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 536056010527 CoA binding domain; Region: CoA_binding; pfam02629 536056010528 CoA-ligase; Region: Ligase_CoA; pfam00549 536056010529 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 536056010530 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 536056010531 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 536056010532 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 536056010533 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 536056010534 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 536056010535 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056010536 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 536056010537 dimerization interface [polypeptide binding]; other site 536056010538 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 536056010539 DNA binding residues [nucleotide binding] 536056010540 dimerization interface [polypeptide binding]; other site 536056010541 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 536056010542 choline transport protein BetT; Provisional; Region: PRK09928 536056010543 transcriptional regulator BetI; Validated; Region: PRK00767 536056010544 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536056010545 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 536056010546 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 536056010547 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 536056010548 tetrameric interface [polypeptide binding]; other site 536056010549 NAD binding site [chemical binding]; other site 536056010550 catalytic residues [active] 536056010551 choline dehydrogenase; Validated; Region: PRK02106 536056010552 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 536056010553 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 536056010554 Uncharacterized conserved protein [Function unknown]; Region: COG1556 536056010555 iron-sulfur cluster-binding protein; Region: TIGR00273 536056010556 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 536056010557 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 536056010558 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 536056010559 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 536056010560 Cysteine-rich domain; Region: CCG; pfam02754 536056010561 Cysteine-rich domain; Region: CCG; pfam02754 536056010562 Cupin; Region: Cupin_6; pfam12852 536056010563 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 536056010564 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056010565 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK08010 536056010566 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 536056010567 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536056010568 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 536056010569 Predicted membrane protein [Function unknown]; Region: COG3059 536056010570 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 536056010571 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056010572 putative transposase OrfB; Reviewed; Region: PHA02517 536056010573 HTH-like domain; Region: HTH_21; pfam13276 536056010574 Integrase core domain; Region: rve; pfam00665 536056010575 Integrase core domain; Region: rve_2; pfam13333 536056010576 Transposase; Region: HTH_Tnp_1; cl17663 536056010577 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 536056010578 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 536056010579 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 536056010580 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 536056010581 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 536056010582 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 536056010583 DNA binding residues [nucleotide binding] 536056010584 putative fimbrial protein TcfA; Provisional; Region: PRK15308 536056010585 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 536056010586 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 536056010587 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 536056010588 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3477 536056010589 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 536056010590 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2; pfam00111 536056010591 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 536056010592 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 536056010593 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 536056010594 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 536056010595 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 536056010596 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 536056010597 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 536056010598 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 536056010599 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 536056010600 XdhC Rossmann domain; Region: XdhC_C; pfam13478 536056010601 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536056010602 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 536056010603 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 536056010604 active site 536056010605 DNA binding site [nucleotide binding] 536056010606 Int/Topo IB signature motif; other site 536056010607 Transposase domain (DUF772); Region: DUF772; pfam05598 536056010608 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 536056010609 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 536056010610 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 536056010611 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 536056010612 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 536056010613 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 536056010614 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 536056010615 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 536056010616 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 536056010617 Transcriptional regulator [Transcription]; Region: IclR; COG1414 536056010618 Bacterial transcriptional regulator; Region: IclR; pfam01614 536056010619 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 536056010620 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 536056010621 inhibitor binding site; inhibition site 536056010622 active site 536056010623 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 536056010624 putative symporter YagG; Provisional; Region: PRK09669 536056010625 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 536056010626 putative dehydratase; Provisional; Region: PRK08211 536056010627 Dehydratase family; Region: ILVD_EDD; cl00340 536056010628 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 536056010629 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 536056010630 inhibitor site; inhibition site 536056010631 active site 536056010632 dimer interface [polypeptide binding]; other site 536056010633 catalytic residue [active] 536056010634 Helix-turn-helix domain; Region: HTH_28; pfam13518 536056010635 Homeodomain-like domain; Region: HTH_32; pfam13565 536056010636 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 536056010637 Integrase core domain; Region: rve; pfam00665 536056010638 Integrase core domain; Region: rve_3; pfam13683 536056010639 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 536056010640 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 536056010641 Transposase; Region: HTH_Tnp_1; pfam01527 536056010642 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 536056010643 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 536056010644 Walker A/P-loop; other site 536056010645 ATP binding site [chemical binding]; other site 536056010646 Q-loop/lid; other site 536056010647 ABC transporter signature motif; other site 536056010648 Walker B; other site 536056010649 D-loop; other site 536056010650 H-loop/switch region; other site 536056010651 TOBE domain; Region: TOBE_2; pfam08402 536056010652 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 536056010653 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 536056010654 S-methylmethionine transporter; Provisional; Region: PRK11387 536056010655 Transposase domain (DUF772); Region: DUF772; pfam05598 536056010656 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 536056010657 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 536056010658 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 536056010659 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 536056010660 putative active site [active] 536056010661 putative NTP binding site [chemical binding]; other site 536056010662 putative nucleic acid binding site [nucleotide binding]; other site 536056010663 HTH-like domain; Region: HTH_21; pfam13276 536056010664 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 536056010665 Helix-turn-helix domain; Region: HTH_38; pfam13936 536056010666 Integrase core domain; Region: rve; pfam00665 536056010667 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 536056010668 Transposase; Region: HTH_Tnp_1; pfam01527 536056010669 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 536056010670 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056010671 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 536056010672 dimerization interface [polypeptide binding]; other site 536056010673 substrate binding pocket [chemical binding]; other site 536056010674 Predicted GTPase [General function prediction only]; Region: COG3596 536056010675 YfjP GTPase; Region: YfjP; cd11383 536056010676 G1 box; other site 536056010677 GTP/Mg2+ binding site [chemical binding]; other site 536056010678 Switch I region; other site 536056010679 G2 box; other site 536056010680 Switch II region; other site 536056010681 G3 box; other site 536056010682 G4 box; other site 536056010683 G5 box; other site 536056010684 Domain of unknown function (DUF932); Region: DUF932; pfam06067 536056010685 Predicted transcriptional regulator [Transcription]; Region: COG2378 536056010686 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 536056010687 Bacterial protein of unknown function (DUF905); Region: DUF905; pfam06006 536056010688 Antirestriction protein; Region: Antirestrict; pfam03230 536056010689 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 536056010690 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 536056010691 MPN+ (JAMM) motif; other site 536056010692 Zinc-binding site [ion binding]; other site 536056010693 Protein of unknown function (DUF987); Region: DUF987; pfam06174 536056010694 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 536056010695 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 536056010696 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 536056010697 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 536056010698 putative catalytic cysteine [active] 536056010699 gamma-glutamyl kinase; Provisional; Region: PRK05429 536056010700 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 536056010701 nucleotide binding site [chemical binding]; other site 536056010702 homotetrameric interface [polypeptide binding]; other site 536056010703 putative phosphate binding site [ion binding]; other site 536056010704 putative allosteric binding site; other site 536056010705 PUA domain; Region: PUA; pfam01472 536056010706 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 536056010707 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 536056010708 trimer interface [polypeptide binding]; other site 536056010709 eyelet of channel; other site 536056010710 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 536056010711 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 536056010712 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536056010713 active site 536056010714 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 536056010715 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 536056010716 metal binding site [ion binding]; metal-binding site 536056010717 dimer interface [polypeptide binding]; other site 536056010718 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 536056010719 peptide chain release factor-like protein; Reviewed; Region: prfH; PRK08179 536056010720 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 536056010721 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536056010722 Coenzyme A binding pocket [chemical binding]; other site 536056010723 putative toxin YafO; Provisional; Region: PRK09885 536056010724 putative antitoxin of the YafO-YafN toxin-antitoxin system; Provisional; Region: PRK09778 536056010725 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 536056010726 active site 536056010727 DNA polymerase IV; Validated; Region: PRK02406 536056010728 DNA binding site [nucleotide binding] 536056010729 hypothetical protein; Validated; Region: PRK06778 536056010730 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 536056010731 ligand binding site [chemical binding]; other site 536056010732 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; COG1298 536056010733 FHIPEP family; Region: FHIPEP; pfam00771 536056010734 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 536056010735 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 536056010736 NlpC/P60 family; Region: NLPC_P60; pfam00877 536056010737 RelB antitoxin; Region: RelB; pfam04221 536056010738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 536056010739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 536056010740 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 536056010741 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 536056010742 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 536056010743 putative active site [active] 536056010744 putative dimer interface [polypeptide binding]; other site 536056010745 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 536056010746 dimer interface [polypeptide binding]; other site 536056010747 active site 536056010748 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 536056010749 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 536056010750 active site 536056010751 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 536056010752 C-lysozyme inhibitor; Provisional; Region: PRK09993 536056010753 C-N hydrolase family amidase; Provisional; Region: PRK10438 536056010754 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 536056010755 putative active site [active] 536056010756 catalytic triad [active] 536056010757 dimer interface [polypeptide binding]; other site 536056010758 multimer interface [polypeptide binding]; other site 536056010759 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 536056010760 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 536056010761 active site 536056010762 catalytic site [active] 536056010763 substrate binding site [chemical binding]; other site 536056010764 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 536056010765 RNA/DNA hybrid binding site [nucleotide binding]; other site 536056010766 active site 536056010767 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 536056010768 hydroxyacylglutathione hydrolase; Provisional; Region: PRK10241 536056010769 Methyltransferase domain; Region: Methyltransf_31; pfam13847 536056010770 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 536056010771 S-adenosylmethionine binding site [chemical binding]; other site 536056010772 hypothetical protein; Provisional; Region: PRK05421 536056010773 putative catalytic site [active] 536056010774 putative metal binding site [ion binding]; other site 536056010775 putative phosphate binding site [ion binding]; other site 536056010776 putative catalytic site [active] 536056010777 putative phosphate binding site [ion binding]; other site 536056010778 putative metal binding site [ion binding]; other site 536056010779 Transcriptional regulator [Transcription]; Region: LysR; COG0583 536056010780 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056010781 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 536056010782 putative effector binding pocket; other site 536056010783 dimerization interface [polypeptide binding]; other site 536056010784 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 536056010785 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 536056010786 active site 536056010787 catalytic tetrad [active] 536056010788 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 536056010789 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 536056010790 active site 536056010791 motif I; other site 536056010792 motif II; other site 536056010793 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 536056010794 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 536056010795 Walker A/P-loop; other site 536056010796 ATP binding site [chemical binding]; other site 536056010797 Q-loop/lid; other site 536056010798 ABC transporter signature motif; other site 536056010799 Walker B; other site 536056010800 D-loop; other site 536056010801 H-loop/switch region; other site 536056010802 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 536056010803 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 536056010804 dimer interface [polypeptide binding]; other site 536056010805 conserved gate region; other site 536056010806 ABC-ATPase subunit interface; other site 536056010807 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 536056010808 lipoprotein, YaeC family; Region: TIGR00363 536056010809 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 536056010810 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 536056010811 homodimer interaction site [polypeptide binding]; other site 536056010812 cofactor binding site; other site 536056010813 prolyl-tRNA synthetase; Provisional; Region: PRK09194 536056010814 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 536056010815 dimer interface [polypeptide binding]; other site 536056010816 motif 1; other site 536056010817 active site 536056010818 motif 2; other site 536056010819 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 536056010820 putative deacylase active site [active] 536056010821 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 536056010822 active site 536056010823 motif 3; other site 536056010824 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 536056010825 anticodon binding site; other site 536056010826 hypothetical protein; Provisional; Region: PRK11479 536056010827 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 536056010828 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 536056010829 NlpE N-terminal domain; Region: NlpE; pfam04170 536056010830 hypothetical protein; Provisional; Region: PRK09256 536056010831 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 536056010832 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 536056010833 hypothetical protein; Provisional; Region: PRK04964 536056010834 Rho-binding antiterminator; Provisional; Region: PRK11625 536056010835 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 536056010836 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 536056010837 Ligand Binding Site [chemical binding]; other site 536056010838 TilS substrate binding domain; Region: TilS; pfam09179 536056010839 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 536056010840 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_1; cd08352 536056010841 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 536056010842 putative metal binding site [ion binding]; other site 536056010843 lysine decarboxylase LdcC; Provisional; Region: PRK15399 536056010844 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 536056010845 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 536056010846 homodimer interface [polypeptide binding]; other site 536056010847 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056010848 catalytic residue [active] 536056010849 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 536056010850 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 536056010851 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 536056010852 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 536056010853 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 536056010854 putative active site [active] 536056010855 putative PHP Thumb interface [polypeptide binding]; other site 536056010856 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 536056010857 generic binding surface II; other site 536056010858 generic binding surface I; other site 536056010859 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 536056010860 RNA/DNA hybrid binding site [nucleotide binding]; other site 536056010861 active site 536056010862 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 536056010863 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 536056010864 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 536056010865 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 536056010866 active site 536056010867 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 536056010868 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 536056010869 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 536056010870 trimer interface [polypeptide binding]; other site 536056010871 active site 536056010872 UDP-GlcNAc binding site [chemical binding]; other site 536056010873 lipid binding site [chemical binding]; lipid-binding site 536056010874 periplasmic chaperone; Provisional; Region: PRK10780 536056010875 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 536056010876 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 536056010877 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 536056010878 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 536056010879 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 536056010880 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 536056010881 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 536056010882 Surface antigen; Region: Bac_surface_Ag; pfam01103 536056010883 zinc metallopeptidase RseP; Provisional; Region: PRK10779 536056010884 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 536056010885 active site 536056010886 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 536056010887 protein binding site [polypeptide binding]; other site 536056010888 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 536056010889 putative substrate binding region [chemical binding]; other site 536056010890 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 536056010891 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 536056010892 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 536056010893 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; cd00475 536056010894 catalytic residue [active] 536056010895 putative FPP diphosphate binding site; other site 536056010896 putative FPP binding hydrophobic cleft; other site 536056010897 dimer interface [polypeptide binding]; other site 536056010898 putative IPP diphosphate binding site; other site 536056010899 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 536056010900 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 536056010901 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 536056010902 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 536056010903 ribosome recycling factor; Reviewed; Region: frr; PRK00083 536056010904 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 536056010905 hinge region; other site 536056010906 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 536056010907 putative nucleotide binding site [chemical binding]; other site 536056010908 uridine monophosphate binding site [chemical binding]; other site 536056010909 homohexameric interface [polypeptide binding]; other site 536056010910 elongation factor Ts; Provisional; Region: tsf; PRK09377 536056010911 UBA/TS-N domain; Region: UBA; pfam00627 536056010912 Elongation factor TS; Region: EF_TS; pfam00889 536056010913 Elongation factor TS; Region: EF_TS; pfam00889 536056010914 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 536056010915 rRNA interaction site [nucleotide binding]; other site 536056010916 S8 interaction site; other site 536056010917 putative laminin-1 binding site; other site 536056010918 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 536056010919 active site 536056010920 PII uridylyl-transferase; Provisional; Region: PRK05007 536056010921 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 536056010922 metal binding triad; other site 536056010923 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 536056010924 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536056010925 Zn2+ binding site [ion binding]; other site 536056010926 Mg2+ binding site [ion binding]; other site 536056010927 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 536056010928 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 536056010929 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 536056010930 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 536056010931 trimer interface [polypeptide binding]; other site 536056010932 active site 536056010933 substrate binding site [chemical binding]; other site 536056010934 CoA binding site [chemical binding]; other site 536056010935 phosphodiesterase YaeI; Provisional; Region: PRK11340 536056010936 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 536056010937 putative active site [active] 536056010938 putative metal binding site [ion binding]; other site 536056010939 hypothetical protein; Provisional; Region: PRK13677 536056010940 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 536056010941 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 536056010942 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 536056010943 serine endoprotease; Provisional; Region: PRK10942 536056010944 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 536056010945 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 536056010946 protein binding site [polypeptide binding]; other site 536056010947 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 536056010948 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 536056010949 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 536056010950 Zn2+ binding site [ion binding]; other site 536056010951 Mg2+ binding site [ion binding]; other site 536056010952 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 536056010953 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 536056010954 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 536056010955 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 536056010956 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 536056010957 cobalamin binding residues [chemical binding]; other site 536056010958 putative BtuC binding residues; other site 536056010959 dimer interface [polypeptide binding]; other site 536056010960 hypothetical protein; Provisional; Region: PRK10578 536056010961 UPF0126 domain; Region: UPF0126; pfam03458 536056010962 UPF0126 domain; Region: UPF0126; pfam03458 536056010963 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 536056010964 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 536056010965 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 536056010966 Cl- selectivity filter; other site 536056010967 Cl- binding residues [ion binding]; other site 536056010968 pore gating glutamate residue; other site 536056010969 dimer interface [polypeptide binding]; other site 536056010970 H+/Cl- coupling transport residue; other site 536056010971 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 536056010972 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 536056010973 inhibitor-cofactor binding pocket; inhibition site 536056010974 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056010975 catalytic residue [active] 536056010976 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 536056010977 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 536056010978 ABC-ATPase subunit interface; other site 536056010979 dimer interface [polypeptide binding]; other site 536056010980 putative PBP binding regions; other site 536056010981 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 536056010982 ABC-ATPase subunit interface; other site 536056010983 dimer interface [polypeptide binding]; other site 536056010984 putative PBP binding regions; other site 536056010985 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 536056010986 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 536056010987 siderophore binding site; other site 536056010988 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 536056010989 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 536056010990 Walker A/P-loop; other site 536056010991 ATP binding site [chemical binding]; other site 536056010992 Q-loop/lid; other site 536056010993 ABC transporter signature motif; other site 536056010994 Walker B; other site 536056010995 D-loop; other site 536056010996 H-loop/switch region; other site 536056010997 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 536056010998 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 536056010999 N-terminal plug; other site 536056011000 ligand-binding site [chemical binding]; other site 536056011001 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 536056011002 Transglycosylase; Region: Transgly; pfam00912 536056011003 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 536056011004 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 536056011005 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 536056011006 ATP binding site [chemical binding]; other site 536056011007 putative Mg++ binding site [ion binding]; other site 536056011008 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 536056011009 nucleotide binding region [chemical binding]; other site 536056011010 ATP-binding site [chemical binding]; other site 536056011011 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 536056011012 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 536056011013 2'-5' RNA ligase; Provisional; Region: PRK15124 536056011014 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 536056011015 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 536056011016 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 536056011017 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 536056011018 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 536056011019 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 536056011020 active site 536056011021 nucleotide binding site [chemical binding]; other site 536056011022 HIGH motif; other site 536056011023 KMSKS motif; other site 536056011024 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 536056011025 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 536056011026 active site 536056011027 NTP binding site [chemical binding]; other site 536056011028 metal binding triad [ion binding]; metal-binding site 536056011029 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 536056011030 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 536056011031 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 536056011032 catalytic center binding site [active] 536056011033 ATP binding site [chemical binding]; other site 536056011034 Fimbrial protein; Region: Fimbrial; cl01416 536056011035 putative chaperone protein EcpD; Provisional; Region: PRK09926 536056011036 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 536056011037 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 536056011038 putative fimbrial outer membrane usher protein; Provisional; Region: PRK09828 536056011039 PapC N-terminal domain; Region: PapC_N; pfam13954 536056011040 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 536056011041 PapC C-terminal domain; Region: PapC_C; pfam13953 536056011042 Fimbrial protein; Region: Fimbrial; cl01416 536056011043 putative fimbrial protein StaE; Provisional; Region: PRK15263 536056011044 putative fimbrial protein StaF; Provisional; Region: PRK15262 536056011045 putative fimbrial-like adhesin protein; Provisional; Region: PRK09723 536056011046 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 536056011047 oligomerization interface [polypeptide binding]; other site 536056011048 active site 536056011049 metal binding site [ion binding]; metal-binding site 536056011050 pantoate--beta-alanine ligase; Region: panC; TIGR00018 536056011051 Pantoate-beta-alanine ligase; Region: PanC; cd00560 536056011052 active site 536056011053 ATP-binding site [chemical binding]; other site 536056011054 pantoate-binding site; other site 536056011055 HXXH motif; other site 536056011056 Uncharacterized conserved protein [Function unknown]; Region: COG5464 536056011057 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 536056011058 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 536056011059 tetramerization interface [polypeptide binding]; other site 536056011060 active site 536056011061 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 536056011062 putative active site [active] 536056011063 putative metal binding site [ion binding]; other site 536056011064 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 536056011065 active pocket/dimerization site; other site 536056011066 active site 536056011067 phosphorylation site [posttranslational modification] 536056011068 inner membrane transport permease; Provisional; Region: PRK15066 536056011069 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 536056011070 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 536056011071 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 536056011072 Walker A/P-loop; other site 536056011073 ATP binding site [chemical binding]; other site 536056011074 Q-loop/lid; other site 536056011075 ABC transporter signature motif; other site 536056011076 Walker B; other site 536056011077 D-loop; other site 536056011078 H-loop/switch region; other site 536056011079 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_cladeA; cd00883 536056011080 active site clefts [active] 536056011081 zinc binding site [ion binding]; other site 536056011082 dimer interface [polypeptide binding]; other site 536056011083 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 536056011084 active site 536056011085 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 536056011086 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 536056011087 Trp docking motif [polypeptide binding]; other site 536056011088 putative active site [active] 536056011089 multicopper oxidase; Provisional; Region: PRK10965 536056011090 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 536056011091 Multicopper oxidase; Region: Cu-oxidase; pfam00394 536056011092 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 536056011093 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 536056011094 spermidine synthase; Provisional; Region: PRK00811 536056011095 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 536056011096 S-adenosylmethionine binding site [chemical binding]; other site 536056011097 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 536056011098 hypothetical protein; Provisional; Region: PRK05248 536056011099 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 536056011100 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 536056011101 substrate binding site [chemical binding]; other site 536056011102 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 536056011103 substrate binding site [chemical binding]; other site 536056011104 ligand binding site [chemical binding]; other site 536056011105 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 536056011106 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 536056011107 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 536056011108 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 536056011109 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 536056011110 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536056011111 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 536056011112 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 536056011113 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 536056011114 E3 interaction surface; other site 536056011115 lipoyl attachment site [posttranslational modification]; other site 536056011116 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 536056011117 E3 interaction surface; other site 536056011118 lipoyl attachment site [posttranslational modification]; other site 536056011119 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 536056011120 E3 interaction surface; other site 536056011121 lipoyl attachment site [posttranslational modification]; other site 536056011122 e3 binding domain; Region: E3_binding; pfam02817 536056011123 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 536056011124 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 536056011125 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 536056011126 dimer interface [polypeptide binding]; other site 536056011127 TPP-binding site [chemical binding]; other site 536056011128 Transcriptional regulators [Transcription]; Region: FadR; COG2186 536056011129 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056011130 DNA-binding site [nucleotide binding]; DNA binding site 536056011131 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 536056011132 aromatic amino acid transporter; Provisional; Region: PRK10238 536056011133 regulatory protein AmpE; Provisional; Region: PRK10987 536056011134 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 536056011135 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 536056011136 amidase catalytic site [active] 536056011137 Zn binding residues [ion binding]; other site 536056011138 substrate binding site [chemical binding]; other site 536056011139 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 536056011140 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 536056011141 dimerization interface [polypeptide binding]; other site 536056011142 active site 536056011143 putative major pilin subunit; Provisional; Region: PRK10574 536056011144 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 536056011145 Pilin (bacterial filament); Region: Pilin; pfam00114 536056011146 hypothetical protein; Provisional; Region: PRK10436 536056011147 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 536056011148 Walker A motif; other site 536056011149 ATP binding site [chemical binding]; other site 536056011150 Walker B motif; other site 536056011151 type IV pilin biogenesis protein; Provisional; Region: PRK10573 536056011152 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 536056011153 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 536056011154 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 536056011155 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 536056011156 active site 536056011157 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 536056011158 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 536056011159 CoA-binding site [chemical binding]; other site 536056011160 ATP-binding [chemical binding]; other site 536056011161 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4582 536056011162 DNA gyrase inhibitor; Reviewed; Region: PRK00418 536056011163 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 536056011164 active site 536056011165 8-oxo-dGMP binding site [chemical binding]; other site 536056011166 nudix motif; other site 536056011167 metal binding site [ion binding]; metal-binding site 536056011168 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 536056011169 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 536056011170 SEC-C motif; Region: SEC-C; pfam02810 536056011171 SecA regulator SecM; Provisional; Region: PRK02943 536056011172 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 536056011173 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 536056011174 cell division protein FtsZ; Validated; Region: PRK09330 536056011175 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 536056011176 nucleotide binding site [chemical binding]; other site 536056011177 SulA interaction site; other site 536056011178 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 536056011179 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 536056011180 Cell division protein FtsA; Region: FtsA; pfam14450 536056011181 cell division protein FtsQ; Provisional; Region: PRK10775 536056011182 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 536056011183 Cell division protein FtsQ; Region: FtsQ; pfam03799 536056011184 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 536056011185 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 536056011186 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 536056011187 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 536056011188 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 536056011189 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536056011190 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 536056011191 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 536056011192 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 536056011193 active site 536056011194 homodimer interface [polypeptide binding]; other site 536056011195 cell division protein FtsW; Provisional; Region: PRK10774 536056011196 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 536056011197 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536056011198 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 536056011199 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 536056011200 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 536056011201 Mg++ binding site [ion binding]; other site 536056011202 putative catalytic motif [active] 536056011203 putative substrate binding site [chemical binding]; other site 536056011204 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 536056011205 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 536056011206 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536056011207 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 536056011208 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 536056011209 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 536056011210 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536056011211 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 536056011212 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 536056011213 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 536056011214 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 536056011215 cell division protein FtsL; Provisional; Region: PRK10772 536056011216 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 536056011217 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 536056011218 mraZ protein; Region: TIGR00242 536056011219 MraZ protein; Region: MraZ; pfam02381 536056011220 MraZ protein; Region: MraZ; pfam02381 536056011221 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 536056011222 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536056011223 DNA binding site [nucleotide binding] 536056011224 domain linker motif; other site 536056011225 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 536056011226 dimerization interface [polypeptide binding]; other site 536056011227 ligand binding site [chemical binding]; other site 536056011228 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 536056011229 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 536056011230 putative valine binding site [chemical binding]; other site 536056011231 dimer interface [polypeptide binding]; other site 536056011232 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 536056011233 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 536056011234 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 536056011235 PYR/PP interface [polypeptide binding]; other site 536056011236 dimer interface [polypeptide binding]; other site 536056011237 TPP binding site [chemical binding]; other site 536056011238 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 536056011239 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 536056011240 TPP-binding site [chemical binding]; other site 536056011241 dimer interface [polypeptide binding]; other site 536056011242 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 536056011243 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056011244 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 536056011245 putative substrate binding pocket [chemical binding]; other site 536056011246 putative dimerization interface [polypeptide binding]; other site 536056011247 2-isopropylmalate synthase; Validated; Region: PRK00915 536056011248 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 536056011249 active site 536056011250 catalytic residues [active] 536056011251 metal binding site [ion binding]; metal-binding site 536056011252 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 536056011253 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 536056011254 tartrate dehydrogenase; Region: TTC; TIGR02089 536056011255 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 536056011256 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 536056011257 substrate binding site [chemical binding]; other site 536056011258 ligand binding site [chemical binding]; other site 536056011259 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 536056011260 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 536056011261 substrate binding site [chemical binding]; other site 536056011262 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 536056011263 sugar efflux transporter; Region: 2A0120; TIGR00899 536056011264 putative substrate translocation pore; other site 536056011265 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 536056011266 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 536056011267 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 536056011268 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 536056011269 dimer interface [polypeptide binding]; other site 536056011270 conserved gate region; other site 536056011271 putative PBP binding loops; other site 536056011272 ABC-ATPase subunit interface; other site 536056011273 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 536056011274 dimer interface [polypeptide binding]; other site 536056011275 conserved gate region; other site 536056011276 putative PBP binding loops; other site 536056011277 ABC-ATPase subunit interface; other site 536056011278 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 536056011279 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 536056011280 Walker A/P-loop; other site 536056011281 ATP binding site [chemical binding]; other site 536056011282 Q-loop/lid; other site 536056011283 ABC transporter signature motif; other site 536056011284 Walker B; other site 536056011285 D-loop; other site 536056011286 H-loop/switch region; other site 536056011287 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 536056011288 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 536056011289 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 536056011290 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 536056011291 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056011292 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056011293 ribulokinase; Provisional; Region: PRK04123 536056011294 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 536056011295 N- and C-terminal domain interface [polypeptide binding]; other site 536056011296 active site 536056011297 MgATP binding site [chemical binding]; other site 536056011298 catalytic site [active] 536056011299 metal binding site [ion binding]; metal-binding site 536056011300 carbohydrate binding site [chemical binding]; other site 536056011301 homodimer interface [polypeptide binding]; other site 536056011302 L-arabinose isomerase; Provisional; Region: PRK02929 536056011303 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 536056011304 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 536056011305 trimer interface [polypeptide binding]; other site 536056011306 putative substrate binding site [chemical binding]; other site 536056011307 putative metal binding site [ion binding]; other site 536056011308 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 536056011309 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; cd00398 536056011310 intersubunit interface [polypeptide binding]; other site 536056011311 active site 536056011312 Zn2+ binding site [ion binding]; other site 536056011313 DNA polymerase II; Reviewed; Region: PRK05762 536056011314 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 536056011315 active site 536056011316 catalytic site [active] 536056011317 substrate binding site [chemical binding]; other site 536056011318 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 536056011319 active site 536056011320 metal-binding site 536056011321 ATP-dependent helicase HepA; Validated; Region: PRK04914 536056011322 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 536056011323 ATP binding site [chemical binding]; other site 536056011324 putative Mg++ binding site [ion binding]; other site 536056011325 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 536056011326 nucleotide binding region [chemical binding]; other site 536056011327 ATP-binding site [chemical binding]; other site 536056011328 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 536056011329 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 536056011330 active site 536056011331 potential frameshift: common BLAST hit: gi|254791195|ref|YP_003076032.1| non-LEE-encoded type III effector 536056011332 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 536056011333 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 536056011334 putative metal binding site [ion binding]; other site 536056011335 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 536056011336 HSP70 interaction site [polypeptide binding]; other site 536056011337 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 536056011338 OstA-like protein; Region: OstA; pfam03968 536056011339 Organic solvent tolerance protein; Region: OstA_C; pfam04453 536056011340 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 536056011341 SurA N-terminal domain; Region: SurA_N; pfam09312 536056011342 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 536056011343 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 536056011344 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 536056011345 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 536056011346 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 536056011347 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 536056011348 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 536056011349 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 536056011350 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 536056011351 active site 536056011352 metal binding site [ion binding]; metal-binding site 536056011353 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 536056011354 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 536056011355 folate binding site [chemical binding]; other site 536056011356 NADP+ binding site [chemical binding]; other site 536056011357 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 536056011358 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 536056011359 TrkA-N domain; Region: TrkA_N; pfam02254 536056011360 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional; Region: PRK00871 536056011361 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 536056011362 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 536056011363 putative substrate translocation pore; other site 536056011364 ferredoxin-like protein FixX; Provisional; Region: PRK15449 536056011365 putative oxidoreductase FixC; Provisional; Region: PRK10157 536056011366 putative electron transfer flavoprotein FixB; Provisional; Region: fixB; PRK03363 536056011367 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; cd01985 536056011368 Ligand binding site [chemical binding]; other site 536056011369 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 536056011370 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 536056011371 Ligand binding site [chemical binding]; other site 536056011372 Electron transfer flavoprotein domain; Region: ETF; pfam01012 536056011373 L-carnitine/gamma-butyrobetaine antiporter; Provisional; Region: PRK03356 536056011374 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 536056011375 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 536056011376 active site 536056011377 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 536056011378 CoA-transferase family III; Region: CoA_transf_3; pfam02515 536056011379 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 536056011380 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 536056011381 acyl-activating enzyme (AAE) consensus motif; other site 536056011382 putative AMP binding site [chemical binding]; other site 536056011383 putative active site [active] 536056011384 putative CoA binding site [chemical binding]; other site 536056011385 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 536056011386 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 536056011387 substrate binding site [chemical binding]; other site 536056011388 oxyanion hole (OAH) forming residues; other site 536056011389 trimer interface [polypeptide binding]; other site 536056011390 carnitine operon protein CaiE; Provisional; Region: PRK13627 536056011391 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 536056011392 putative trimer interface [polypeptide binding]; other site 536056011393 putative metal binding site [ion binding]; other site 536056011394 DNA-binding transcriptional activator CaiF; Provisional; Region: PRK11476 536056011395 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 536056011396 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 536056011397 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 536056011398 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 536056011399 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 536056011400 ATP-grasp domain; Region: ATP-grasp_4; cl17255 536056011401 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 536056011402 IMP binding site; other site 536056011403 dimer interface [polypeptide binding]; other site 536056011404 interdomain contacts; other site 536056011405 partial ornithine binding site; other site 536056011406 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 536056011407 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 536056011408 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 536056011409 catalytic site [active] 536056011410 subunit interface [polypeptide binding]; other site 536056011411 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 536056011412 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 536056011413 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 536056011414 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 536056011415 active site 536056011416 tetramer interface [polypeptide binding]; other site 536056011417 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 536056011418 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 536056011419 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 536056011420 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 536056011421 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 536056011422 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 536056011423 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 536056011424 HIGH motif; other site 536056011425 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 536056011426 active site 536056011427 KMSKS motif; other site 536056011428 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 536056011429 tRNA binding surface [nucleotide binding]; other site 536056011430 anticodon binding site; other site 536056011431 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 536056011432 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 536056011433 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 536056011434 active site 536056011435 Riboflavin kinase; Region: Flavokinase; smart00904 536056011436 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 536056011437 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 536056011438 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056011439 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 536056011440 putative dimerization interface [polypeptide binding]; other site 536056011441 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 536056011442 Hok/gef family; Region: HOK_GEF; pfam01848 536056011443 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 536056011444 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 536056011445 chaperone protein DnaJ; Provisional; Region: PRK10767 536056011446 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 536056011447 HSP70 interaction site [polypeptide binding]; other site 536056011448 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 536056011449 substrate binding site [polypeptide binding]; other site 536056011450 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 536056011451 Zn binding sites [ion binding]; other site 536056011452 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 536056011453 dimer interface [polypeptide binding]; other site 536056011454 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 536056011455 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 536056011456 nucleotide binding site [chemical binding]; other site 536056011457 NEF interaction site [polypeptide binding]; other site 536056011458 SBD interface [polypeptide binding]; other site 536056011459 hypothetical protein; Provisional; Region: PRK10154 536056011460 hypothetical protein; Provisional; Region: PRK10236 536056011461 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 536056011462 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 536056011463 hypothetical protein; Provisional; Region: PRK10659 536056011464 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 536056011465 MPT binding site; other site 536056011466 trimer interface [polypeptide binding]; other site 536056011467 transaldolase-like protein; Provisional; Region: PTZ00411 536056011468 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 536056011469 active site 536056011470 dimer interface [polypeptide binding]; other site 536056011471 catalytic residue [active] 536056011472 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 536056011473 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 536056011474 hypothetical protein; Validated; Region: PRK02101 536056011475 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 536056011476 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 536056011477 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 536056011478 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056011479 catalytic residue [active] 536056011480 homoserine kinase; Region: thrB; TIGR00191 536056011481 Protein of unknown function; Region: YhfT; pfam10797 536056011482 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 536056011483 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 536056011484 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 536056011485 putative catalytic residues [active] 536056011486 putative nucleotide binding site [chemical binding]; other site 536056011487 putative aspartate binding site [chemical binding]; other site 536056011488 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 536056011489 dimer interface [polypeptide binding]; other site 536056011490 putative threonine allosteric regulatory site; other site 536056011491 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 536056011492 putative threonine allosteric regulatory site; other site 536056011493 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 536056011494 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 536056011495 putative RNA methyltransferase; Provisional; Region: PRK10433 536056011496 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050 536056011497 two-component response regulator; Provisional; Region: PRK11173 536056011498 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 536056011499 active site 536056011500 phosphorylation site [posttranslational modification] 536056011501 intermolecular recognition site; other site 536056011502 dimerization interface [polypeptide binding]; other site 536056011503 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 536056011504 DNA binding site [nucleotide binding] 536056011505 Inner membrane protein involved in colicin E2 resistance [Defense mechanisms]; Region: CreD; COG4452 536056011506 sensory histidine kinase CreC; Provisional; Region: PRK11100 536056011507 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 536056011508 dimerization interface [polypeptide binding]; other site 536056011509 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 536056011510 dimer interface [polypeptide binding]; other site 536056011511 phosphorylation site [posttranslational modification] 536056011512 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 536056011513 ATP binding site [chemical binding]; other site 536056011514 Mg2+ binding site [ion binding]; other site 536056011515 G-X-G motif; other site 536056011516 DNA-binding response regulator CreB; Provisional; Region: PRK11083 536056011517 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 536056011518 active site 536056011519 phosphorylation site [posttranslational modification] 536056011520 intermolecular recognition site; other site 536056011521 dimerization interface [polypeptide binding]; other site 536056011522 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 536056011523 DNA binding site [nucleotide binding] 536056011524 hypothetical protein; Provisional; Region: PRK10756 536056011525 CreA protein; Region: CreA; pfam05981 536056011526 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 536056011527 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056011528 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 536056011529 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 536056011530 catalytic core [active] 536056011531 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 536056011532 Trp operon repressor; Provisional; Region: PRK01381 536056011533 lytic murein transglycosylase; Provisional; Region: PRK11619 536056011534 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 536056011535 N-acetyl-D-glucosamine binding site [chemical binding]; other site 536056011536 catalytic residue [active] 536056011537 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 536056011538 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056011539 Walker A/P-loop; other site 536056011540 ATP binding site [chemical binding]; other site 536056011541 Q-loop/lid; other site 536056011542 ABC transporter signature motif; other site 536056011543 Walker B; other site 536056011544 D-loop; other site 536056011545 H-loop/switch region; other site 536056011546 ABC transporter; Region: ABC_tran_2; pfam12848 536056011547 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 536056011548 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 536056011549 non-specific DNA binding site [nucleotide binding]; other site 536056011550 salt bridge; other site 536056011551 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 536056011552 sequence-specific DNA binding site [nucleotide binding]; other site 536056011553 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 536056011554 active site 536056011555 (T/H)XGH motif; other site 536056011556 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 536056011557 DNA repair protein RadA; Region: sms; TIGR00416 536056011558 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 536056011559 Walker A motif/ATP binding site; other site 536056011560 ATP binding site [chemical binding]; other site 536056011561 Walker B motif; other site 536056011562 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 536056011563 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 536056011564 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 536056011565 motif II; other site 536056011566 hypothetical protein; Provisional; Region: PRK11246 536056011567 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 536056011568 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 536056011569 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 536056011570 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09775 536056011571 HipA-like N-terminal domain; Region: HipA_N; pfam07805 536056011572 HipA-like C-terminal domain; Region: HipA_C; pfam07804 536056011573 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 536056011574 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 536056011575 phosphopentomutase; Provisional; Region: PRK05362 536056011576 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 536056011577 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 536056011578 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 536056011579 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 536056011580 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 536056011581 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 536056011582 intersubunit interface [polypeptide binding]; other site 536056011583 active site 536056011584 catalytic residue [active] 536056011585 hypothetical protein; Provisional; Region: PRK10977 536056011586 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 536056011587 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 536056011588 FeS/SAM binding site; other site 536056011589 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 536056011590 active site 536056011591 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 536056011592 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 536056011593 active site 536056011594 nucleophile elbow; other site 536056011595 periplasmic protein; Provisional; Region: PRK10568 536056011596 BON domain; Region: BON; pfam04972 536056011597 BON domain; Region: BON; pfam04972 536056011598 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 536056011599 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 536056011600 G1 box; other site 536056011601 putative GEF interaction site [polypeptide binding]; other site 536056011602 GTP/Mg2+ binding site [chemical binding]; other site 536056011603 Switch I region; other site 536056011604 G2 box; other site 536056011605 G3 box; other site 536056011606 Switch II region; other site 536056011607 G4 box; other site 536056011608 G5 box; other site 536056011609 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 536056011610 dUMP phosphatase; Provisional; Region: PRK09449 536056011611 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 536056011612 motif II; other site 536056011613 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 536056011614 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536056011615 Coenzyme A binding pocket [chemical binding]; other site 536056011616 DNA polymerase III subunit psi; Validated; Region: PRK06856 536056011617 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 536056011618 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 536056011619 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 536056011620 S-adenosylmethionine binding site [chemical binding]; other site 536056011621 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 536056011622 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 536056011623 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 536056011624 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 536056011625 DNA-binding transcriptional activator BglJ; Provisional; Region: PRK11475 536056011626 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 536056011627 DNA binding residues [nucleotide binding] 536056011628 dimerization interface [polypeptide binding]; other site 536056011629 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 536056011630 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 536056011631 DNA binding residues [nucleotide binding] 536056011632 dimerization interface [polypeptide binding]; other site 536056011633 Uncharacterized conserved protein [Function unknown]; Region: COG2966 536056011634 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 536056011635 hypothetical protein; Provisional; Region: PRK09917 536056011636 primosomal protein DnaI; Provisional; Region: PRK02854 536056011637 DNA replication protein DnaC; Validated; Region: PRK07952 536056011638 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 536056011639 Walker A motif; other site 536056011640 ATP binding site [chemical binding]; other site 536056011641 Walker B motif; other site 536056011642 hypothetical protein; Provisional; Region: PRK11667 536056011643 phosphoglycerol transferase I; Provisional; Region: PRK03776 536056011644 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 536056011645 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 536056011646 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 536056011647 putative NAD(P) binding site [chemical binding]; other site 536056011648 catalytic Zn binding site [ion binding]; other site 536056011649 structural Zn binding site [ion binding]; other site 536056011650 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056011651 DNA-binding site [nucleotide binding]; DNA binding site 536056011652 Transcriptional regulators [Transcription]; Region: GntR; COG1802 536056011653 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 536056011654 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 536056011655 D-galactonate transporter; Region: 2A0114; TIGR00893 536056011656 putative substrate translocation pore; other site 536056011657 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 536056011658 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 536056011659 dimer interface [polypeptide binding]; other site 536056011660 ligand binding site [chemical binding]; other site 536056011661 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 536056011662 dimerization interface [polypeptide binding]; other site 536056011663 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 536056011664 dimer interface [polypeptide binding]; other site 536056011665 putative CheW interface [polypeptide binding]; other site 536056011666 carbon starvation protein A; Provisional; Region: PRK15015 536056011667 Carbon starvation protein CstA; Region: CstA; pfam02554 536056011668 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 536056011669 Uncharacterized small protein [Function unknown]; Region: COG2879 536056011670 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 536056011671 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 536056011672 P-loop, Walker A motif; other site 536056011673 Base recognition motif; other site 536056011674 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 536056011675 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 536056011676 Mrr N-terminal domain; Region: Mrr_N; pfam14338 536056011677 Restriction endonuclease; Region: Mrr_cat; pfam04471 536056011678 HsdM N-terminal domain; Region: HsdM_N; pfam12161 536056011679 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 536056011680 Methyltransferase domain; Region: Methyltransf_26; pfam13659 536056011681 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 536056011682 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 536056011683 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 536056011684 endoribonuclease SymE; Provisional; Region: PRK13605 536056011685 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 536056011686 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 536056011687 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 536056011688 Walker A motif; other site 536056011689 ATP binding site [chemical binding]; other site 536056011690 Walker B motif; other site 536056011691 arginine finger; other site 536056011692 5-methylcytosine-specific restriction enzyme subunit McrC; Provisional; Region: PRK09736 536056011693 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 536056011694 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 536056011695 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 536056011696 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 536056011697 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056011698 DNA-binding site [nucleotide binding]; DNA binding site 536056011699 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 536056011700 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056011701 homodimer interface [polypeptide binding]; other site 536056011702 catalytic residue [active] 536056011703 multidrug efflux system protein MdtM; Provisional; Region: PRK15403 536056011704 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 536056011705 putative substrate translocation pore; other site 536056011706 Predicted membrane protein [Function unknown]; Region: COG2733 536056011707 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 536056011708 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 536056011709 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 536056011710 CoA-substrate-specific enzyme activase, putative; Region: CoA_E_activ; TIGR00241 536056011711 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 536056011712 SdiA-regulated; Region: SdiA-regulated; pfam06977 536056011713 SdiA-regulated; Region: SdiA-regulated; cd09971 536056011714 putative active site [active] 536056011715 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 536056011716 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 536056011717 RNA 2'-phosphotransferase; Reviewed; Region: PRK00819 536056011718 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 536056011719 Nucleoside recognition; Region: Gate; pfam07670 536056011720 hypothetical protein; Provisional; Region: PRK10519 536056011721 Isoaspartyl dipeptidase hydrolyzes the beta-L-isoaspartyl linkages in dipeptides, as part of the degradative pathway to eliminate proteins with beta-L-isoaspartyl peptide bonds, bonds whereby the beta-group of an aspartate forms the peptide link with the...; Region: Isoaspartyl-dipeptidase; cd01308 536056011722 isoaspartyl dipeptidase IadA; Region: isoAsp_dipep; TIGR01975 536056011723 dimer interface [polypeptide binding]; other site 536056011724 active site 536056011725 cell density-dependent motility repressor; Provisional; Region: PRK10082 536056011726 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056011727 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 536056011728 DNA replication/recombination/repair protein; Provisional; Region: iraD; PRK14128 536056011729 Protein of unknown function (DUF2686); Region: DUF2686; pfam10887 536056011730 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 536056011731 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056011732 DNA-binding site [nucleotide binding]; DNA binding site 536056011733 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 536056011734 D-mannonate oxidoreductase; Provisional; Region: PRK15037 536056011735 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 536056011736 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 536056011737 mannonate dehydratase; Region: uxuA; TIGR00695 536056011738 mannonate dehydratase; Provisional; Region: PRK03906 536056011739 fructuronate transporter; Provisional; Region: PRK10034 536056011740 gluconate transporter; Region: gntP; TIGR00791 536056011741 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cd10466 536056011742 mannosyl binding site [chemical binding]; other site 536056011743 Fimbrial protein; Region: Fimbrial; pfam00419 536056011744 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 536056011745 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 536056011746 outer membrane usher protein; Provisional; Region: PRK15193 536056011747 PapC N-terminal domain; Region: PapC_N; pfam13954 536056011748 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 536056011749 PapC C-terminal domain; Region: PapC_C; pfam13953 536056011750 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 536056011751 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 536056011752 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 536056011753 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 536056011754 Fimbrial protein; Region: Fimbrial; cl01416 536056011755 FimB and FimE and related proteins, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain. This CD includes those proteins similar to E.coli FimE and FimB regulatory proteins and Proteus mirabilis MrpI; Region: INT_FimBE_C; cd01197 536056011756 Int/Topo IB signature motif; other site 536056011757 FimB and FimE and related proteins, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain. This CD includes those proteins similar to E.coli FimE and FimB regulatory proteins and Proteus mirabilis MrpI; Region: INT_FimBE_C; cd01197 536056011758 Int/Topo IB signature motif; other site 536056011759 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 536056011760 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 536056011761 Kelch motif; Region: Kelch_1; pfam01344 536056011762 Domain of unknown function (DUF303); Region: DUF303; pfam03629 536056011763 hypothetical protein; Provisional; Region: PRK13687 536056011764 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 536056011765 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536056011766 Coenzyme A binding pocket [chemical binding]; other site 536056011767 Methyltransferase domain; Region: Methyltransf_31; pfam13847 536056011768 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 536056011769 S-adenosylmethionine binding site [chemical binding]; other site 536056011770 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 536056011771 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 536056011772 oligomer interface [polypeptide binding]; other site 536056011773 active site 536056011774 metal binding site [ion binding]; metal-binding site 536056011775 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 536056011776 active site 536056011777 P-loop; other site 536056011778 phosphorylation site [posttranslational modification] 536056011779 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 536056011780 PTS system, galactitol-specific IIC component; Region: EIIC-GAT; TIGR00827 536056011781 membrane complex biogenesis protein, BtpA family; Region: thylakoid_BtpA; TIGR00259 536056011782 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 536056011783 active site 536056011784 phosphorylation site [posttranslational modification] 536056011785 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 536056011786 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 536056011787 substrate binding site [chemical binding]; other site 536056011788 hexamer interface [polypeptide binding]; other site 536056011789 metal binding site [ion binding]; metal-binding site 536056011790 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 536056011791 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 536056011792 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 536056011793 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 536056011794 Transcriptional regulator [Transcription]; Region: IclR; COG1414 536056011795 Bacterial transcriptional regulator; Region: IclR; pfam01614 536056011796 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 536056011797 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 536056011798 inhibitor site; inhibition site 536056011799 active site 536056011800 dimer interface [polypeptide binding]; other site 536056011801 catalytic residue [active] 536056011802 putative dehydratase; Provisional; Region: PRK08211 536056011803 Dihydroxyacid dehydratase/phosphogluconate dehydratase [Amino acid transport and metabolism / Carbohydrate transport and metabolism]; Region: IlvD; COG0129 536056011804 gluconate transporter; Region: gntP; TIGR00791 536056011805 fructuronate transporter; Provisional; Region: PRK10034; cl15264 536056011806 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 536056011807 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 536056011808 DNA binding residues [nucleotide binding] 536056011809 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 536056011810 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 536056011811 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 536056011812 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 536056011813 DNA binding residues [nucleotide binding] 536056011814 fec operon regulator FecR; Reviewed; Region: PRK09774 536056011815 FecR protein; Region: FecR; pfam04773 536056011816 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 536056011817 Secretin and TonB N terminus short domain; Region: STN; smart00965 536056011818 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 536056011819 N-terminal plug; other site 536056011820 ligand-binding site [chemical binding]; other site 536056011821 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 536056011822 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 536056011823 siderophore binding site; other site 536056011824 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 536056011825 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 536056011826 dimer interface [polypeptide binding]; other site 536056011827 ABC-ATPase subunit interface; other site 536056011828 putative PBP binding regions; other site 536056011829 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 536056011830 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 536056011831 ABC-ATPase subunit interface; other site 536056011832 dimer interface [polypeptide binding]; other site 536056011833 putative PBP binding regions; other site 536056011834 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 536056011835 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 536056011836 Walker A/P-loop; other site 536056011837 ATP binding site [chemical binding]; other site 536056011838 Q-loop/lid; other site 536056011839 ABC transporter signature motif; other site 536056011840 Walker B; other site 536056011841 D-loop; other site 536056011842 H-loop/switch region; other site 536056011843 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 536056011844 Transposase; Region: HTH_Tnp_1; pfam01527 536056011845 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 536056011846 Helix-turn-helix domain; Region: HTH_38; pfam13936 536056011847 Integrase core domain; Region: rve; pfam00665 536056011848 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 536056011849 Transposase; Region: HTH_Tnp_1; cl17663 536056011850 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 536056011851 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 536056011852 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 536056011853 putative sialic acid transporter; Provisional; Region: PRK12307 536056011854 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 536056011855 putative substrate translocation pore; other site 536056011856 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 536056011857 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 536056011858 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 536056011859 IS2 transposase TnpB; Reviewed; Region: PRK09409 536056011860 HTH-like domain; Region: HTH_21; pfam13276 536056011861 Integrase core domain; Region: rve; pfam00665 536056011862 Integrase core domain; Region: rve_3; pfam13683 536056011863 IS2 repressor TnpA; Reviewed; Region: PRK09413 536056011864 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 536056011865 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 536056011866 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 536056011867 active site 536056011868 Int/Topo IB signature motif; other site 536056011869 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 536056011870 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 536056011871 putative NAD(P) binding site [chemical binding]; other site 536056011872 putative substrate binding site [chemical binding]; other site 536056011873 catalytic Zn binding site [ion binding]; other site 536056011874 structural Zn binding site [ion binding]; other site 536056011875 dimer interface [polypeptide binding]; other site 536056011876 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 536056011877 ATP-binding site [chemical binding]; other site 536056011878 Gluconate-6-phosphate binding site [chemical binding]; other site 536056011879 Shikimate kinase; Region: SKI; pfam01202 536056011880 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 536056011881 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 536056011882 putative NAD(P) binding site [chemical binding]; other site 536056011883 catalytic Zn binding site [ion binding]; other site 536056011884 gluconate 5-dehydrogenase; Provisional; Region: PRK08085 536056011885 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 536056011886 NADP binding site [chemical binding]; other site 536056011887 homodimer interface [polypeptide binding]; other site 536056011888 active site 536056011889 fructuronate transporter; Provisional; Region: PRK10034; cl15264 536056011890 gluconate transporter; Region: gntP; TIGR00791 536056011891 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 536056011892 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536056011893 DNA binding site [nucleotide binding] 536056011894 domain linker motif; other site 536056011895 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 536056011896 putative dimerization interface [polypeptide binding]; other site 536056011897 putative ligand binding site [chemical binding]; other site 536056011898 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 536056011899 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 536056011900 Walker A motif; other site 536056011901 ATP binding site [chemical binding]; other site 536056011902 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 536056011903 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 536056011904 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 536056011905 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 536056011906 multifunctional aminopeptidase A; Provisional; Region: PRK00913 536056011907 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 536056011908 interface (dimer of trimers) [polypeptide binding]; other site 536056011909 Substrate-binding/catalytic site; other site 536056011910 Zn-binding sites [ion binding]; other site 536056011911 DNA polymerase III subunit chi; Validated; Region: PRK05728 536056011912 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 536056011913 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 536056011914 HIGH motif; other site 536056011915 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 536056011916 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 536056011917 active site 536056011918 KMSKS motif; other site 536056011919 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 536056011920 tRNA binding surface [nucleotide binding]; other site 536056011921 anticodon binding site; other site 536056011922 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 536056011923 Predicted membrane protein [Function unknown]; Region: COG4269 536056011924 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 536056011925 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536056011926 Coenzyme A binding pocket [chemical binding]; other site 536056011927 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3076 536056011928 RNase E inhibitor protein; Provisional; Region: PRK11191 536056011929 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 536056011930 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 536056011931 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 536056011932 SopA-like central domain; Region: SopA; pfam13981 536056011933 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 536056011934 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 536056011935 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536056011936 oxidoreductase; Provisional; Region: PRK12742 536056011937 classical (c) SDRs; Region: SDR_c; cd05233 536056011938 NAD(P) binding site [chemical binding]; other site 536056011939 active site 536056011940 YjgH belongs 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 similarity and no...; Region: YjgH_like; cd02198 536056011941 homotrimer interaction site [polypeptide binding]; other site 536056011942 putative active site [active] 536056011943 aspartate carbamoyltransferase; Region: asp_carb_tr; TIGR00670 536056011944 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 536056011945 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 536056011946 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 536056011947 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 536056011948 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 536056011949 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 536056011950 homotrimer interaction site [polypeptide binding]; other site 536056011951 putative active site [active] 536056011952 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 536056011953 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 536056011954 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 536056011955 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 536056011956 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 536056011957 motif II; other site 536056011958 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 536056011959 trehalose repressor; Provisional; Region: treR; PRK09492 536056011960 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536056011961 DNA binding site [nucleotide binding] 536056011962 domain linker motif; other site 536056011963 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 536056011964 dimerization interface [polypeptide binding]; other site 536056011965 ligand binding site [chemical binding]; other site 536056011966 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 536056011967 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 536056011968 active site turn [active] 536056011969 phosphorylation site [posttranslational modification] 536056011970 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 536056011971 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 536056011972 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 536056011973 Ca binding site [ion binding]; other site 536056011974 active site 536056011975 catalytic site [active] 536056011976 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 536056011977 ATP cone domain; Region: ATP-cone; pfam03477 536056011978 Class III ribonucleotide reductase; Region: RNR_III; cd01675 536056011979 effector binding site; other site 536056011980 active site 536056011981 Zn binding site [ion binding]; other site 536056011982 glycine loop; other site 536056011983 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 536056011984 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 536056011985 FeS/SAM binding site; other site 536056011986 Cytochrome b562; Region: Cytochrom_B562; cl01546 536056011987 peptidase PmbA; Provisional; Region: PRK11040 536056011988 hypothetical protein; Provisional; Region: PRK05255 536056011989 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 536056011990 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 536056011991 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 536056011992 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 536056011993 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 536056011994 AMP binding site [chemical binding]; other site 536056011995 metal binding site [ion binding]; metal-binding site 536056011996 active site 536056011997 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536056011998 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 536056011999 TM-ABC transporter signature motif; other site 536056012000 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536056012001 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 536056012002 TM-ABC transporter signature motif; other site 536056012003 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 536056012004 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 536056012005 Walker A/P-loop; other site 536056012006 ATP binding site [chemical binding]; other site 536056012007 Q-loop/lid; other site 536056012008 ABC transporter signature motif; other site 536056012009 Walker B; other site 536056012010 D-loop; other site 536056012011 H-loop/switch region; other site 536056012012 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 536056012013 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 536056012014 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 536056012015 putative ligand binding site [chemical binding]; other site 536056012016 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 536056012017 dimer interface [polypeptide binding]; other site 536056012018 substrate binding site [chemical binding]; other site 536056012019 metal binding sites [ion binding]; metal-binding site 536056012020 PemK-like protein; Region: PemK; cl00995 536056012021 antitoxin ChpS; Provisional; Region: PRK11347 536056012022 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 536056012023 putative active site pocket [active] 536056012024 dimerization interface [polypeptide binding]; other site 536056012025 putative catalytic residue [active] 536056012026 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 536056012027 Family of unknown function (DUF490); Region: DUF490; pfam04357 536056012028 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 536056012029 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 536056012030 Surface antigen; Region: Bac_surface_Ag; pfam01103 536056012031 methionine sulfoxide reductase A; Provisional; Region: PRK00058 536056012032 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 536056012033 Domain of unknown function DUF21; Region: DUF21; pfam01595 536056012034 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 536056012035 Transporter associated domain; Region: CorC_HlyC; smart01091 536056012036 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 536056012037 Predicted transcriptional regulator [General function prediction only]; Region: COG3054 536056012038 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...; Region: CysQ; cd01638 536056012039 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 536056012040 active site 536056012041 Predicted transcriptional regulators [Transcription]; Region: COG1733 536056012042 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 536056012043 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 536056012044 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 536056012045 NADP binding site [chemical binding]; other site 536056012046 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 536056012047 EamA-like transporter family; Region: EamA; pfam00892 536056012048 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 536056012049 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 536056012050 Hemerythrin-like domain; Region: Hr-like; cd12108 536056012051 Fe binding site [ion binding]; other site 536056012052 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 536056012053 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 536056012054 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 536056012055 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 536056012056 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 536056012057 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 536056012058 Protein of unknown function (DUF2686); Region: DUF2686; pfam10887 536056012059 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 536056012060 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 536056012061 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 536056012062 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 536056012063 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 536056012064 dimer interface [polypeptide binding]; other site 536056012065 ssDNA binding site [nucleotide binding]; other site 536056012066 tetramer (dimer of dimers) interface [polypeptide binding]; other site 536056012067 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 536056012068 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 536056012069 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 536056012070 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; cd00398 536056012071 intersubunit interface [polypeptide binding]; other site 536056012072 active site 536056012073 Zn2+ binding site [ion binding]; other site 536056012074 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 536056012075 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 536056012076 AP (apurinic/apyrimidinic) site pocket; other site 536056012077 DNA interaction; other site 536056012078 Metal-binding active site; metal-binding site 536056012079 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 536056012080 active site 536056012081 dimer interface [polypeptide binding]; other site 536056012082 magnesium binding site [ion binding]; other site 536056012083 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 536056012084 active site 536056012085 phosphorylation site [posttranslational modification] 536056012086 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 536056012087 active site 536056012088 P-loop; other site 536056012089 phosphorylation site [posttranslational modification] 536056012090 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 536056012091 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 536056012092 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 536056012093 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 536056012094 transcriptional repressor UlaR; Provisional; Region: PRK13509 536056012095 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 536056012096 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 536056012097 esterase; Provisional; Region: PRK10566 536056012098 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 536056012099 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 536056012100 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 536056012101 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 536056012102 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 536056012103 Proteins involved in DNA damage response, similar to the AidB gene product; Region: AidB; cd01154 536056012104 FAD binding site [chemical binding]; other site 536056012105 substrate binding site [chemical binding]; other site 536056012106 catalytic residues [active] 536056012107 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 536056012108 Predicted integral membrane protein [Function unknown]; Region: COG5463 536056012109 Predicted membrane protein [Function unknown]; Region: COG3766 536056012110 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 536056012111 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 536056012112 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 536056012113 PspA/IM30 family; Region: PspA_IM30; pfam04012 536056012114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3789 536056012115 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 536056012116 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 536056012117 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 536056012118 exoribonuclease R; Provisional; Region: PRK11642 536056012119 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 536056012120 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 536056012121 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 536056012122 RNB domain; Region: RNB; pfam00773 536056012123 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 536056012124 RNA binding site [nucleotide binding]; other site 536056012125 Predicted transcriptional regulator [Transcription]; Region: COG1959 536056012126 transcriptional repressor NsrR; Provisional; Region: PRK11014 536056012127 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 536056012128 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 536056012129 GDP-binding site [chemical binding]; other site 536056012130 ACT binding site; other site 536056012131 IMP binding site; other site 536056012132 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 536056012133 FtsH protease regulator HflC; Provisional; Region: PRK11029 536056012134 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 536056012135 FtsH protease regulator HflK; Provisional; Region: PRK10930 536056012136 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 536056012137 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 536056012138 GTPase HflX; Provisional; Region: PRK11058 536056012139 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 536056012140 HflX GTPase family; Region: HflX; cd01878 536056012141 G1 box; other site 536056012142 GTP/Mg2+ binding site [chemical binding]; other site 536056012143 Switch I region; other site 536056012144 G2 box; other site 536056012145 G3 box; other site 536056012146 Switch II region; other site 536056012147 G4 box; other site 536056012148 G5 box; other site 536056012149 bacterial Hfq-like; Region: Hfq; cd01716 536056012150 hexamer interface [polypeptide binding]; other site 536056012151 Sm1 motif; other site 536056012152 RNA binding site [nucleotide binding]; other site 536056012153 Sm2 motif; other site 536056012154 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 536056012155 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 536056012156 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 536056012157 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 536056012158 ATP binding site [chemical binding]; other site 536056012159 Mg2+ binding site [ion binding]; other site 536056012160 G-X-G motif; other site 536056012161 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 536056012162 ATP binding site [chemical binding]; other site 536056012163 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 536056012164 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 536056012165 AMIN domain; Region: AMIN; pfam11741 536056012166 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 536056012167 active site 536056012168 metal binding site [ion binding]; metal-binding site 536056012169 ADP-binding protein; Provisional; Region: PRK10646 536056012170 putative carbohydrate kinase; Provisional; Region: PRK10565 536056012171 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 536056012172 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 536056012173 putative substrate binding site [chemical binding]; other site 536056012174 putative ATP binding site [chemical binding]; other site 536056012175 epoxyqueuosine reductase; Region: TIGR00276 536056012176 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 536056012177 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 536056012178 catalytic site [active] 536056012179 putative active site [active] 536056012180 putative substrate binding site [chemical binding]; other site 536056012181 dimer interface [polypeptide binding]; other site 536056012182 GTPase RsgA; Reviewed; Region: PRK12288 536056012183 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 536056012184 RNA binding site [nucleotide binding]; other site 536056012185 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 536056012186 GTPase/Zn-binding domain interface [polypeptide binding]; other site 536056012187 GTP/Mg2+ binding site [chemical binding]; other site 536056012188 G4 box; other site 536056012189 G5 box; other site 536056012190 G1 box; other site 536056012191 Switch I region; other site 536056012192 G2 box; other site 536056012193 G3 box; other site 536056012194 Switch II region; other site 536056012195 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 536056012196 putative mechanosensitive channel protein; Provisional; Region: PRK10929 536056012197 linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated...; Region: H15; cl00073 536056012198 DNA-binding site [nucleotide binding]; DNA binding site 536056012199 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 536056012200 Mechanosensitive ion channel; Region: MS_channel; pfam00924 536056012201 Protein of unknown function (DUF2645); Region: DUF2645; pfam10840 536056012202 inner membrane transporter YjeM; Provisional; Region: PRK15238 536056012203 poxB regulator PoxA; Provisional; Region: PRK09350 536056012204 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 536056012205 motif 1; other site 536056012206 dimer interface [polypeptide binding]; other site 536056012207 active site 536056012208 motif 2; other site 536056012209 motif 3; other site 536056012210 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 536056012211 L-aspartate oxidase; Provisional; Region: PRK06175 536056012212 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 536056012213 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 536056012214 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 536056012215 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 536056012216 D-subunit interface [polypeptide binding]; other site 536056012217 Iron-sulfur protein interface; other site 536056012218 proximal quinone binding site [chemical binding]; other site 536056012219 distal quinone binding site [chemical binding]; other site 536056012220 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 536056012221 Iron-sulfur protein interface; other site 536056012222 proximal quinone binding site [chemical binding]; other site 536056012223 C-subunit interface; other site 536056012224 distal quinone binding site; other site 536056012225 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 536056012226 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 536056012227 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 536056012228 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 536056012229 multidrug efflux system protein; Provisional; Region: PRK11431 536056012230 entericidin B membrane lipoprotein; Provisional; Region: PRK10081 536056012231 elongation factor P; Validated; Region: PRK00529 536056012232 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 536056012233 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 536056012234 RNA binding site [nucleotide binding]; other site 536056012235 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 536056012236 RNA binding site [nucleotide binding]; other site 536056012237 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 536056012238 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 536056012239 FeS/SAM binding site; other site 536056012240 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 536056012241 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 536056012242 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 536056012243 ring oligomerisation interface [polypeptide binding]; other site 536056012244 ATP/Mg binding site [chemical binding]; other site 536056012245 stacking interactions; other site 536056012246 hinge regions; other site 536056012247 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 536056012248 oligomerisation interface [polypeptide binding]; other site 536056012249 mobile loop; other site 536056012250 roof hairpin; other site 536056012251 putative transporter; Provisional; Region: PRK11021 536056012252 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 536056012253 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 536056012254 Aspartase; Region: Aspartase; cd01357 536056012255 active sites [active] 536056012256 tetramer interface [polypeptide binding]; other site 536056012257 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 536056012258 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 536056012259 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 536056012260 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 536056012261 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 536056012262 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 536056012263 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 536056012264 DsbD alpha interface [polypeptide binding]; other site 536056012265 catalytic residues [active] 536056012266 putative transcriptional regulator; Provisional; Region: PRK11640 536056012267 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536056012268 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 536056012269 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 536056012270 DNA binding site [nucleotide binding] 536056012271 lysine decarboxylase CadA; Provisional; Region: PRK15400 536056012272 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 536056012273 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 536056012274 homodimer interface [polypeptide binding]; other site 536056012275 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056012276 catalytic residue [active] 536056012277 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 536056012278 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 536056012279 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 536056012280 putative substrate translocation pore; other site 536056012281 POT family; Region: PTR2; pfam00854 536056012282 lysyl-tRNA synthetase; Reviewed; Region: PRK12445 536056012283 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 536056012284 dimer interface [polypeptide binding]; other site 536056012285 putative anticodon binding site; other site 536056012286 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 536056012287 motif 1; other site 536056012288 active site 536056012289 motif 2; other site 536056012290 motif 3; other site 536056012291 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 536056012292 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 536056012293 Predicted acetyltransferase [General function prediction only]; Region: COG2388 536056012294 Uncharacterized conserved protein [Function unknown]; Region: COG3592 536056012295 sensory histidine kinase DcuS; Provisional; Region: PRK11086 536056012296 PAS domain; Region: PAS; smart00091 536056012297 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 536056012298 ATP binding site [chemical binding]; other site 536056012299 Mg2+ binding site [ion binding]; other site 536056012300 G-X-G motif; other site 536056012301 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 536056012302 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 536056012303 active site 536056012304 phosphorylation site [posttranslational modification] 536056012305 intermolecular recognition site; other site 536056012306 dimerization interface [polypeptide binding]; other site 536056012307 Transcriptional regulator; Region: CitT; pfam12431 536056012308 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 536056012309 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 536056012310 fumarate hydratase; Provisional; Region: PRK15389 536056012311 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 536056012312 Fumarase C-terminus; Region: Fumerase_C; pfam05683 536056012313 hypothetical protein; Provisional; Region: PRK09867 536056012314 melibiose:sodium symporter; Provisional; Region: PRK10429 536056012315 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 536056012316 alpha-galactosidase; Provisional; Region: PRK15076 536056012317 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 536056012318 NAD binding site [chemical binding]; other site 536056012319 sugar binding site [chemical binding]; other site 536056012320 divalent metal binding site [ion binding]; other site 536056012321 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 536056012322 dimer interface [polypeptide binding]; other site 536056012323 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 536056012324 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056012325 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056012326 arginine decarboxylase; Provisional; Region: PRK15029 536056012327 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 536056012328 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 536056012329 homodimer interface [polypeptide binding]; other site 536056012330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056012331 catalytic residue [active] 536056012332 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 536056012333 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536056012334 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056012335 arginine:agmatin antiporter; Provisional; Region: PRK10644 536056012336 putative metal dependent hydrolase; Provisional; Region: PRK11598 536056012337 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 536056012338 Sulfatase; Region: Sulfatase; pfam00884 536056012339 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 536056012340 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 536056012341 active site 536056012342 phosphorylation site [posttranslational modification] 536056012343 intermolecular recognition site; other site 536056012344 dimerization interface [polypeptide binding]; other site 536056012345 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 536056012346 DNA binding site [nucleotide binding] 536056012347 sensor protein BasS/PmrB; Provisional; Region: PRK10755 536056012348 HAMP domain; Region: HAMP; pfam00672 536056012349 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 536056012350 dimer interface [polypeptide binding]; other site 536056012351 phosphorylation site [posttranslational modification] 536056012352 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 536056012353 ATP binding site [chemical binding]; other site 536056012354 Mg2+ binding site [ion binding]; other site 536056012355 G-X-G motif; other site 536056012356 proline/glycine betaine transporter; Provisional; Region: PRK10642 536056012357 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 536056012358 putative substrate translocation pore; other site 536056012359 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 536056012360 YjcZ-like protein; Region: YjcZ; pfam13990 536056012361 hypothetical protein; Provisional; Region: PRK09866 536056012362 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 536056012363 G1 box; other site 536056012364 GTP/Mg2+ binding site [chemical binding]; other site 536056012365 G2 box; other site 536056012366 Switch I region; other site 536056012367 G3 box; other site 536056012368 Switch II region; other site 536056012369 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 536056012370 G2 box; other site 536056012371 Switch I region; other site 536056012372 G3 box; other site 536056012373 Switch II region; other site 536056012374 G4 box; other site 536056012375 G5 box; other site 536056012376 hypothetical protein; Provisional; Region: PRK10220 536056012377 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 536056012378 PhnA protein; Region: PhnA; pfam03831 536056012379 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 536056012380 dimer interface [polypeptide binding]; other site 536056012381 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 536056012382 phosphonate/organophosphate ester transporter subunit; Provisional; Region: PRK09984 536056012383 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 536056012384 Walker A/P-loop; other site 536056012385 ATP binding site [chemical binding]; other site 536056012386 Q-loop/lid; other site 536056012387 ABC transporter signature motif; other site 536056012388 Walker B; other site 536056012389 D-loop; other site 536056012390 H-loop/switch region; other site 536056012391 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 536056012392 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 536056012393 substrate binding pocket [chemical binding]; other site 536056012394 membrane-bound complex binding site; other site 536056012395 hinge residues; other site 536056012396 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 536056012397 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056012398 DNA-binding site [nucleotide binding]; DNA binding site 536056012399 UTRA domain; Region: UTRA; pfam07702 536056012400 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 536056012401 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnH; COG3625 536056012402 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnI; COG3626 536056012403 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 536056012404 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 536056012405 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 536056012406 Walker A/P-loop; other site 536056012407 ATP binding site [chemical binding]; other site 536056012408 Q-loop/lid; other site 536056012409 ABC transporter signature motif; other site 536056012410 Walker B; other site 536056012411 D-loop; other site 536056012412 H-loop/switch region; other site 536056012413 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 536056012414 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 536056012415 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 536056012416 Walker A/P-loop; other site 536056012417 ATP binding site [chemical binding]; other site 536056012418 Q-loop/lid; other site 536056012419 ABC transporter signature motif; other site 536056012420 Walker B; other site 536056012421 D-loop; other site 536056012422 H-loop/switch region; other site 536056012423 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 536056012424 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 536056012425 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 536056012426 active site 536056012427 ribose 1,5-bisphosphokinase; Provisional; Region: PRK10078 536056012428 AAA domain; Region: AAA_18; pfam13238 536056012429 active site 536056012430 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536056012431 Coenzyme A binding pocket [chemical binding]; other site 536056012432 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 536056012433 ribose 5-phosphate isomerase B; Region: rpiB; TIGR01120 536056012434 DNA-binding transcriptional repressor RpiR; Provisional; Region: PRK11337 536056012435 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 536056012436 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 536056012437 putative active site [active] 536056012438 D-allose transporter subunit; Provisional; Region: PRK09701 536056012439 Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis; Region: PBP1_allose_binding; cd06320 536056012440 ligand binding site [chemical binding]; other site 536056012441 dimerization interface [polypeptide binding]; other site 536056012442 zinc binding site [ion binding]; other site 536056012443 D-allose transporter ATP-binding protein; Provisional; Region: PRK09700 536056012444 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 536056012445 Walker A/P-loop; other site 536056012446 ATP binding site [chemical binding]; other site 536056012447 Q-loop/lid; other site 536056012448 ABC transporter signature motif; other site 536056012449 Walker B; other site 536056012450 D-loop; other site 536056012451 H-loop/switch region; other site 536056012452 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 536056012453 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536056012454 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 536056012455 TM-ABC transporter signature motif; other site 536056012456 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 536056012457 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 536056012458 substrate binding site [chemical binding]; other site 536056012459 hexamer interface [polypeptide binding]; other site 536056012460 metal binding site [ion binding]; metal-binding site 536056012461 D-allose kinase; Provisional; Region: PRK09698 536056012462 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 536056012463 nucleotide binding site [chemical binding]; other site 536056012464 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 536056012465 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 536056012466 multidrug resistance protein MdtN; Provisional; Region: PRK10476 536056012467 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 536056012468 HlyD family secretion protein; Region: HlyD_3; pfam13437 536056012469 multidrug efflux system protein MdtO; Provisional; Region: PRK11427 536056012470 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 536056012471 putative outer membrane efflux protein MdtP; Provisional; Region: PRK09915 536056012472 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 536056012473 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 536056012474 [4Fe-4S] binding site [ion binding]; other site 536056012475 molybdopterin cofactor binding site; other site 536056012476 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_CT_Formate-Dh_H; cd02790 536056012477 molybdopterin cofactor binding site; other site 536056012478 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 536056012479 Sel1-like repeats; Region: SEL1; smart00671 536056012480 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 536056012481 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 536056012482 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 536056012483 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 536056012484 binding surface 536056012485 TPR motif; other site 536056012486 formate-dependent nitrite reductase complex subunit NrfF; Provisional; Region: PRK10144 536056012487 heme lyase subunit NrfE; Provisional; Region: PRK10369 536056012488 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 536056012489 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 536056012490 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 536056012491 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 536056012492 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 536056012493 acetyl-CoA synthetase; Provisional; Region: PRK00174 536056012494 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 536056012495 active site 536056012496 CoA binding site [chemical binding]; other site 536056012497 acyl-activating enzyme (AAE) consensus motif; other site 536056012498 AMP binding site [chemical binding]; other site 536056012499 acetate binding site [chemical binding]; other site 536056012500 Predicted membrane protein [Function unknown]; Region: COG3162 536056012501 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 536056012502 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 536056012503 Na binding site [ion binding]; other site 536056012504 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 536056012505 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 536056012506 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 536056012507 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 536056012508 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 536056012509 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 536056012510 redox-sensitivie transcriptional activator SoxR; Provisional; Region: PRK15002 536056012511 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 536056012512 DNA binding residues [nucleotide binding] 536056012513 dimer interface [polypeptide binding]; other site 536056012514 [2Fe-2S] cluster binding site [ion binding]; other site 536056012515 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 536056012516 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056012517 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 536056012518 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 536056012519 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 536056012520 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 536056012521 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 536056012522 dimer interface [polypeptide binding]; other site 536056012523 ssDNA binding site [nucleotide binding]; other site 536056012524 tetramer (dimer of dimers) interface [polypeptide binding]; other site 536056012525 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 536056012526 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 536056012527 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 536056012528 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 536056012529 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 536056012530 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 536056012531 secondary thiamine-phosphate synthase enzyme; Region: TIGR00149_YjbQ 536056012532 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 536056012533 active site 536056012534 motif I; other site 536056012535 motif II; other site 536056012536 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 536056012537 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 536056012538 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056012539 homodimer interface [polypeptide binding]; other site 536056012540 catalytic residue [active] 536056012541 alanine racemase; Reviewed; Region: alr; PRK00053 536056012542 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 536056012543 active site 536056012544 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 536056012545 substrate binding site [chemical binding]; other site 536056012546 catalytic residues [active] 536056012547 dimer interface [polypeptide binding]; other site 536056012548 replicative DNA helicase; Provisional; Region: PRK08006 536056012549 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 536056012550 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 536056012551 Walker A motif; other site 536056012552 ATP binding site [chemical binding]; other site 536056012553 Walker B motif; other site 536056012554 DNA binding loops [nucleotide binding] 536056012555 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 536056012556 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 536056012557 NADP binding site [chemical binding]; other site 536056012558 dimer interface [polypeptide binding]; other site 536056012559 phage shock protein G; Reviewed; Region: pspG; PRK09459 536056012560 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 536056012561 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 536056012562 FMN binding site [chemical binding]; other site 536056012563 active site 536056012564 catalytic residues [active] 536056012565 substrate binding site [chemical binding]; other site 536056012566 Protein of unknown function (DUF2713); Region: DUF2713; pfam10897 536056012567 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 536056012568 metal binding site 2 [ion binding]; metal-binding site 536056012569 putative DNA binding helix; other site 536056012570 metal binding site 1 [ion binding]; metal-binding site 536056012571 dimer interface [polypeptide binding]; other site 536056012572 structural Zn2+ binding site [ion binding]; other site 536056012573 hypothetical protein; Provisional; Region: PRK10428 536056012574 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 536056012575 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 536056012576 LexA repressor; Validated; Region: PRK00215 536056012577 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 536056012578 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 536056012579 Catalytic site [active] 536056012580 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 536056012581 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 536056012582 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 536056012583 putative acyl-acceptor binding pocket; other site 536056012584 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 536056012585 UbiA prenyltransferase family; Region: UbiA; pfam01040 536056012586 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 536056012587 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 536056012588 SopA-like central domain; Region: SopA; pfam13981 536056012589 hypothetical protein; Validated; Region: PRK09718 536056012590 maltose regulon periplasmic protein; Provisional; Region: PRK10564 536056012591 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 536056012592 trimer interface; other site 536056012593 sugar binding site [chemical binding]; other site 536056012594 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 536056012595 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 536056012596 Walker A/P-loop; other site 536056012597 ATP binding site [chemical binding]; other site 536056012598 Q-loop/lid; other site 536056012599 ABC transporter signature motif; other site 536056012600 Walker B; other site 536056012601 D-loop; other site 536056012602 H-loop/switch region; other site 536056012603 TOBE domain; Region: TOBE_2; pfam08402 536056012604 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 536056012605 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 536056012606 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 536056012607 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 536056012608 dimer interface [polypeptide binding]; other site 536056012609 conserved gate region; other site 536056012610 putative PBP binding loops; other site 536056012611 ABC-ATPase subunit interface; other site 536056012612 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 536056012613 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 536056012614 dimer interface [polypeptide binding]; other site 536056012615 conserved gate region; other site 536056012616 putative PBP binding loops; other site 536056012617 ABC-ATPase subunit interface; other site 536056012618 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 536056012619 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 536056012620 putative substrate translocation pore; other site 536056012621 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 536056012622 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 536056012623 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 536056012624 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 536056012625 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 536056012626 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 536056012627 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 536056012628 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 536056012629 active site 536056012630 dimer interface [polypeptide binding]; other site 536056012631 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 536056012632 dimer interface [polypeptide binding]; other site 536056012633 active site 536056012634 aspartate kinase III; Validated; Region: PRK09084 536056012635 AAK_AKiii-LysC-EC: Amino Acid Kinase Superfamily (AAK), AKiii-LysC-EC: this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKIII. AKIII is a monofunctional class enzyme (LysC) found in some...; Region: AAK_AKiii-LysC-EC; cd04258 536056012636 nucleotide binding site [chemical binding]; other site 536056012637 putative catalytic residues [active] 536056012638 aspartate binding site [chemical binding]; other site 536056012639 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 536056012640 lysine allosteric regulatory site; other site 536056012641 dimer interface [polypeptide binding]; other site 536056012642 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 536056012643 dimer interface [polypeptide binding]; other site 536056012644 hypothetical protein; Provisional; Region: PRK10515 536056012645 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 536056012646 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 536056012647 RNA binding surface [nucleotide binding]; other site 536056012648 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 536056012649 probable active site [active] 536056012650 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 536056012651 active site pocket [active] 536056012652 oxyanion hole [active] 536056012653 catalytic triad [active] 536056012654 active site nucleophile [active] 536056012655 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 536056012656 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 536056012657 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 536056012658 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 536056012659 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 536056012660 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 536056012661 substrate binding pocket [chemical binding]; other site 536056012662 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 536056012663 B12 binding site [chemical binding]; other site 536056012664 cobalt ligand [ion binding]; other site 536056012665 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 536056012666 transcriptional repressor IclR; Provisional; Region: PRK11569 536056012667 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 536056012668 Bacterial transcriptional regulator; Region: IclR; pfam01614 536056012669 ShET2 enterotoxin, N-terminal region; Region: Toxin_15; pfam07906 536056012670 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 536056012671 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 536056012672 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 536056012673 isocitrate lyase; Provisional; Region: PRK15063 536056012674 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 536056012675 tetramer interface [polypeptide binding]; other site 536056012676 active site 536056012677 Mg2+/Mn2+ binding site [ion binding]; other site 536056012678 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 536056012679 malate synthase A; Region: malate_syn_A; TIGR01344 536056012680 active site 536056012681 homoserine O-succinyltransferase; Provisional; Region: PRK05368 536056012682 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 536056012683 proposed active site lysine [active] 536056012684 conserved cys residue [active] 536056012685 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 536056012686 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536056012687 Coenzyme A binding pocket [chemical binding]; other site 536056012688 hypothetical protein; Provisional; Region: PRK10039 536056012689 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 536056012690 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 536056012691 purine monophosphate binding site [chemical binding]; other site 536056012692 dimer interface [polypeptide binding]; other site 536056012693 putative catalytic residues [active] 536056012694 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 536056012695 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 536056012696 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 536056012697 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 536056012698 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 536056012699 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 536056012700 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 536056012701 active site 536056012702 phosphorylation site [posttranslational modification] 536056012703 intermolecular recognition site; other site 536056012704 dimerization interface [polypeptide binding]; other site 536056012705 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 536056012706 Walker A motif; other site 536056012707 ATP binding site [chemical binding]; other site 536056012708 Walker B motif; other site 536056012709 arginine finger; other site 536056012710 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536056012711 sensor protein ZraS; Provisional; Region: PRK10364 536056012712 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 536056012713 dimer interface [polypeptide binding]; other site 536056012714 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 536056012715 ATP binding site [chemical binding]; other site 536056012716 Mg2+ binding site [ion binding]; other site 536056012717 G-X-G motif; other site 536056012718 zinc resistance protein; Provisional; Region: zraP; PRK11546 536056012719 dimer interface [polypeptide binding]; other site 536056012720 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 536056012721 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 536056012722 IHF dimer interface [polypeptide binding]; other site 536056012723 IHF - DNA interface [nucleotide binding]; other site 536056012724 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 536056012725 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 536056012726 Active_site [active] 536056012727 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 536056012728 substrate binding site [chemical binding]; other site 536056012729 active site 536056012730 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 536056012731 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 536056012732 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 536056012733 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 536056012734 putative NADH binding site [chemical binding]; other site 536056012735 putative active site [active] 536056012736 nudix motif; other site 536056012737 putative metal binding site [ion binding]; other site 536056012738 Regulator of sigma D [Transcription]; Region: Rsd; COG3160 536056012739 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 536056012740 ThiC-associated domain; Region: ThiC-associated; pfam13667 536056012741 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 536056012742 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 536056012743 thiamine phosphate binding site [chemical binding]; other site 536056012744 active site 536056012745 pyrophosphate binding site [ion binding]; other site 536056012746 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 536056012747 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 536056012748 ATP binding site [chemical binding]; other site 536056012749 substrate interface [chemical binding]; other site 536056012750 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 536056012751 thiS-thiF/thiG interaction site; other site 536056012752 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 536056012753 ThiS interaction site; other site 536056012754 putative active site [active] 536056012755 tetramer interface [polypeptide binding]; other site 536056012756 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 536056012757 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 536056012758 FeS/SAM binding site; other site 536056012759 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 536056012760 stationary phase growth adaptation protein; Provisional; Region: PRK09717 536056012761 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 536056012762 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 536056012763 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 536056012764 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 536056012765 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 536056012766 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 536056012767 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 536056012768 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 536056012769 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 536056012770 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 536056012771 DNA binding site [nucleotide binding] 536056012772 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 536056012773 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 536056012774 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 536056012775 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 536056012776 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 536056012777 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 536056012778 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 536056012779 RPB3 interaction site [polypeptide binding]; other site 536056012780 RPB1 interaction site [polypeptide binding]; other site 536056012781 RPB11 interaction site [polypeptide binding]; other site 536056012782 RPB10 interaction site [polypeptide binding]; other site 536056012783 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 536056012784 core dimer interface [polypeptide binding]; other site 536056012785 peripheral dimer interface [polypeptide binding]; other site 536056012786 L10 interface [polypeptide binding]; other site 536056012787 L11 interface [polypeptide binding]; other site 536056012788 putative EF-Tu interaction site [polypeptide binding]; other site 536056012789 putative EF-G interaction site [polypeptide binding]; other site 536056012790 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 536056012791 23S rRNA interface [nucleotide binding]; other site 536056012792 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 536056012793 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 536056012794 mRNA/rRNA interface [nucleotide binding]; other site 536056012795 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 536056012796 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 536056012797 23S rRNA interface [nucleotide binding]; other site 536056012798 L7/L12 interface [polypeptide binding]; other site 536056012799 putative thiostrepton binding site; other site 536056012800 L25 interface [polypeptide binding]; other site 536056012801 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 536056012802 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 536056012803 putative homodimer interface [polypeptide binding]; other site 536056012804 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 536056012805 heterodimer interface [polypeptide binding]; other site 536056012806 homodimer interface [polypeptide binding]; other site 536056012807 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 536056012808 elongation factor Tu; Reviewed; Region: PRK00049 536056012809 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 536056012810 G1 box; other site 536056012811 GEF interaction site [polypeptide binding]; other site 536056012812 GTP/Mg2+ binding site [chemical binding]; other site 536056012813 Switch I region; other site 536056012814 G2 box; other site 536056012815 G3 box; other site 536056012816 Switch II region; other site 536056012817 G4 box; other site 536056012818 G5 box; other site 536056012819 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 536056012820 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 536056012821 Antibiotic Binding Site [chemical binding]; other site 536056012822 pantothenate kinase; Provisional; Region: PRK05439 536056012823 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 536056012824 ATP-binding site [chemical binding]; other site 536056012825 CoA-binding site [chemical binding]; other site 536056012826 Mg2+-binding site [ion binding]; other site 536056012827 Biotin operon repressor [Transcription]; Region: BirA; COG1654 536056012828 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 536056012829 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 536056012830 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 536056012831 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 536056012832 FAD binding domain; Region: FAD_binding_4; pfam01565 536056012833 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 536056012834 glutamate racemase; Provisional; Region: PRK00865 536056012835 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 536056012836 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 536056012837 N-terminal plug; other site 536056012838 ligand-binding site [chemical binding]; other site 536056012839 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 536056012840 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 536056012841 S-adenosylmethionine binding site [chemical binding]; other site 536056012842 hypothetical protein; Provisional; Region: PRK11056 536056012843 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 536056012844 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 536056012845 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 536056012846 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 536056012847 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 536056012848 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 536056012849 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056012850 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 536056012851 dimerization interface [polypeptide binding]; other site 536056012852 argininosuccinate lyase; Provisional; Region: PRK04833 536056012853 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 536056012854 active sites [active] 536056012855 tetramer interface [polypeptide binding]; other site 536056012856 AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of...; Region: AAK_NAGK-NC; cd04249 536056012857 nucleotide binding site [chemical binding]; other site 536056012858 N-acetyl-L-glutamate binding site [chemical binding]; other site 536056012859 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 536056012860 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 536056012861 acetylornithine deacetylase; Provisional; Region: PRK05111 536056012862 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 536056012863 metal binding site [ion binding]; metal-binding site 536056012864 putative dimer interface [polypeptide binding]; other site 536056012865 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 536056012866 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 536056012867 hypothetical protein; Provisional; Region: PRK10649 536056012868 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 536056012869 Sulfatase; Region: Sulfatase; pfam00884 536056012870 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 536056012871 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056012872 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 536056012873 active site 536056012874 P-loop; other site 536056012875 phosphorylation site [posttranslational modification] 536056012876 pyruvate formate lyase II activase; Provisional; Region: PRK10076 536056012877 putative formate acetyltransferase 2; Provisional; Region: pflD; PRK09983 536056012878 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 536056012879 dimer interface [polypeptide binding]; other site 536056012880 active site 536056012881 glycine loop; other site 536056012882 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 536056012883 active site 536056012884 P-loop; other site 536056012885 phosphorylation site [posttranslational modification] 536056012886 putative PTS system fructose-like transporter subunit EIIC; Provisional; Region: PRK10478 536056012887 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 536056012888 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 536056012889 dimerization domain swap beta strand [polypeptide binding]; other site 536056012890 regulatory protein interface [polypeptide binding]; other site 536056012891 active site 536056012892 regulatory phosphorylation site [posttranslational modification]; other site 536056012893 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 536056012894 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 536056012895 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 536056012896 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 536056012897 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 536056012898 active site 536056012899 phosphorylation site [posttranslational modification] 536056012900 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 536056012901 active site 536056012902 intersubunit interactions; other site 536056012903 catalytic residue [active] 536056012904 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 536056012905 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 536056012906 dimer interface [polypeptide binding]; other site 536056012907 active site 536056012908 metal binding site [ion binding]; metal-binding site 536056012909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3738 536056012910 EamA-like transporter family; Region: EamA; pfam00892 536056012911 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 536056012912 EamA-like transporter family; Region: EamA; pfam00892 536056012913 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 536056012914 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 536056012915 heme binding site [chemical binding]; other site 536056012916 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 536056012917 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 536056012918 FAD binding site [chemical binding]; other site 536056012919 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 536056012920 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 536056012921 putative catalytic residues [active] 536056012922 putative nucleotide binding site [chemical binding]; other site 536056012923 putative aspartate binding site [chemical binding]; other site 536056012924 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 536056012925 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 536056012926 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 536056012927 cystathionine gamma-synthase; Provisional; Region: PRK08045 536056012928 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 536056012929 homodimer interface [polypeptide binding]; other site 536056012930 substrate-cofactor binding pocket; other site 536056012931 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056012932 catalytic residue [active] 536056012933 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 536056012934 dimerization interface [polypeptide binding]; other site 536056012935 DNA binding site [nucleotide binding] 536056012936 corepressor binding sites; other site 536056012937 hypothetical protein; Provisional; Region: PRK10030 536056012938 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 536056012939 primosome assembly protein PriA; Validated; Region: PRK05580 536056012940 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 536056012941 ATP binding site [chemical binding]; other site 536056012942 putative Mg++ binding site [ion binding]; other site 536056012943 helicase superfamily c-terminal domain; Region: HELICc; smart00490 536056012944 ATP-binding site [chemical binding]; other site 536056012945 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 536056012946 DNA binding site [nucleotide binding] 536056012947 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 536056012948 domain linker motif; other site 536056012949 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 536056012950 dimerization interface [polypeptide binding]; other site 536056012951 ligand binding site [chemical binding]; other site 536056012952 essential cell division protein FtsN; Provisional; Region: PRK10927 536056012953 cell division protein FtsN; Provisional; Region: PRK12757 536056012954 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 536056012955 active site 536056012956 HslU subunit interaction site [polypeptide binding]; other site 536056012957 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 536056012958 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 536056012959 Walker A motif; other site 536056012960 ATP binding site [chemical binding]; other site 536056012961 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 536056012962 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 536056012963 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Region: menA; TIGR00751 536056012964 UbiA prenyltransferase family; Region: UbiA; pfam01040 536056012965 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 536056012966 septal ring assembly protein ZapB; Provisional; Region: PRK15422 536056012967 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; cd00333 536056012968 amphipathic channel; other site 536056012969 Asn-Pro-Ala signature motifs; other site 536056012970 glycerol kinase; Provisional; Region: glpK; PRK00047 536056012971 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 536056012972 N- and C-terminal domain interface [polypeptide binding]; other site 536056012973 active site 536056012974 MgATP binding site [chemical binding]; other site 536056012975 catalytic site [active] 536056012976 metal binding site [ion binding]; metal-binding site 536056012977 glycerol binding site [chemical binding]; other site 536056012978 homotetramer interface [polypeptide binding]; other site 536056012979 homodimer interface [polypeptide binding]; other site 536056012980 FBP binding site [chemical binding]; other site 536056012981 protein IIAGlc interface [polypeptide binding]; other site 536056012982 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 536056012983 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 536056012984 putative active site [active] 536056012985 ferredoxin-NADP reductase; Provisional; Region: PRK10926 536056012986 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 536056012987 FAD binding pocket [chemical binding]; other site 536056012988 FAD binding motif [chemical binding]; other site 536056012989 phosphate binding motif [ion binding]; other site 536056012990 beta-alpha-beta structure motif; other site 536056012991 NAD binding pocket [chemical binding]; other site 536056012992 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 536056012993 Ligand Binding Site [chemical binding]; other site 536056012994 hypothetical protein; Provisional; Region: PRK09981 536056012995 Predicted membrane protein [Function unknown]; Region: COG3152 536056012996 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 536056012997 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 536056012998 triosephosphate isomerase; Provisional; Region: PRK14567 536056012999 substrate binding site [chemical binding]; other site 536056013000 dimer interface [polypeptide binding]; other site 536056013001 catalytic triad [active] 536056013002 CDP-diacylglycerol pyrophosphatase, bacterial type; Region: cdh; TIGR00672 536056013003 sulfate transporter subunit; Provisional; Region: PRK10752 536056013004 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 536056013005 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 536056013006 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 536056013007 active site 536056013008 ADP/pyrophosphate binding site [chemical binding]; other site 536056013009 dimerization interface [polypeptide binding]; other site 536056013010 allosteric effector site; other site 536056013011 fructose-1,6-bisphosphate binding site; other site 536056013012 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 536056013013 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 536056013014 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 536056013015 dimer interface [polypeptide binding]; other site 536056013016 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 536056013017 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 536056013018 active site 536056013019 intermolecular recognition site; other site 536056013020 dimerization interface [polypeptide binding]; other site 536056013021 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 536056013022 DNA binding site [nucleotide binding] 536056013023 two-component sensor protein; Provisional; Region: cpxA; PRK09470 536056013024 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 536056013025 dimerization interface [polypeptide binding]; other site 536056013026 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 536056013027 dimer interface [polypeptide binding]; other site 536056013028 phosphorylation site [posttranslational modification] 536056013029 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 536056013030 ATP binding site [chemical binding]; other site 536056013031 Mg2+ binding site [ion binding]; other site 536056013032 G-X-G motif; other site 536056013033 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 536056013034 MOSC domain; Region: MOSC; pfam03473 536056013035 3-alpha domain; Region: 3-alpha; pfam03475 536056013036 2-keto-3-deoxygluconate transporter; Region: kdgT; TIGR00793 536056013037 superoxide dismutase; Provisional; Region: PRK10925 536056013038 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 536056013039 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 536056013040 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 536056013041 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 536056013042 transcriptional activator RhaR; Provisional; Region: PRK13500 536056013043 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 536056013044 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056013045 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056013046 transcriptional activator RhaS; Provisional; Region: PRK13503 536056013047 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 536056013048 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056013049 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 536056013050 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 536056013051 N- and C-terminal domain interface [polypeptide binding]; other site 536056013052 active site 536056013053 putative catalytic site [active] 536056013054 metal binding site [ion binding]; metal-binding site 536056013055 ATP binding site [chemical binding]; other site 536056013056 rhamnulokinase; Provisional; Region: rhaB; PRK10640 536056013057 carbohydrate binding site [chemical binding]; other site 536056013058 L-rhamnose isomerase; Provisional; Region: PRK01076 536056013059 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 536056013060 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; cd00398 536056013061 intersubunit interface [polypeptide binding]; other site 536056013062 active site 536056013063 Zn2+ binding site [ion binding]; other site 536056013064 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 536056013065 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 536056013066 active site 536056013067 phosphorylation site [posttranslational modification] 536056013068 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 536056013069 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 536056013070 active site 536056013071 P-loop; other site 536056013072 phosphorylation site [posttranslational modification] 536056013073 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 536056013074 putative peptidase; Provisional; Region: PRK09864 536056013075 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 536056013076 oligomer interface [polypeptide binding]; other site 536056013077 active site 536056013078 metal binding site [ion binding]; metal-binding site 536056013079 putative frv operon regulatory protein; Provisional; Region: PRK09863 536056013080 HTH domain; Region: HTH_11; pfam08279 536056013081 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 536056013082 active site 536056013083 phosphorylation site [posttranslational modification] 536056013084 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 536056013085 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 536056013086 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 536056013087 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 536056013088 [4Fe-4S] binding site [ion binding]; other site 536056013089 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 536056013090 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 536056013091 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 536056013092 molybdopterin cofactor binding site; other site 536056013093 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 536056013094 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 536056013095 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 536056013096 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 536056013097 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 536056013098 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 536056013099 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 536056013100 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 536056013101 Coenzyme A binding pocket [chemical binding]; other site 536056013102 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 536056013103 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 536056013104 putative active site [active] 536056013105 dimerization interface [polypeptide binding]; other site 536056013106 putative tRNAtyr binding site [nucleotide binding]; other site 536056013107 hypothetical protein; Reviewed; Region: PRK01637 536056013108 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 536056013109 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 536056013110 motif II; other site 536056013111 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 536056013112 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 536056013113 putative DNA binding site [nucleotide binding]; other site 536056013114 putative Zn2+ binding site [ion binding]; other site 536056013115 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 536056013116 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 536056013117 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 536056013118 substrate binding site [chemical binding]; other site 536056013119 ATP binding site [chemical binding]; other site 536056013120 NADH-dependent gamma-hydroxybutyrate dehydrogenase; Provisional; Region: PRK15461 536056013121 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 536056013122 Tagatose-1,6-bisphosphate aldolase [Carbohydrate transport and metabolism]; Region: LacD; COG3684 536056013123 catalytic residue [active] 536056013124 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 536056013125 dimerization interface [polypeptide binding]; other site 536056013126 putative active cleft [active] 536056013127 Aldose 1-epimerase, similar to Escherichia coli YihR; Region: Aldose_epim_Ec_YihR; cd09022 536056013128 active site 536056013129 catalytic residues [active] 536056013130 alpha-glucosidase; Provisional; Region: PRK10426 536056013131 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 536056013132 YihQ is a bacterial alpha-glucosidase with a conserved glycosyl hydrolase family 31 (GH31) domain that catalyzes the release of an alpha-glucosyl residue from the non-reducing end of alpha-glucoside substrates such as alpha-glucosyl fluoride. Orthologs...; Region: GH31_glucosidase_YihQ; cd06594 536056013133 putative active site [active] 536056013134 putative catalytic site [active] 536056013135 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 536056013136 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 536056013137 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 536056013138 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 536056013139 outer membrane porin L; Provisional; Region: ompL; PRK09980 536056013140 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 536056013141 putative substrate translocation pore; other site 536056013142 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 536056013143 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 536056013144 transcriptional regulator protein; Region: phnR; TIGR03337 536056013145 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056013146 DNA-binding site [nucleotide binding]; DNA binding site 536056013147 UTRA domain; Region: UTRA; pfam07702 536056013148 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 536056013149 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 536056013150 G1 box; other site 536056013151 putative GEF interaction site [polypeptide binding]; other site 536056013152 GTP/Mg2+ binding site [chemical binding]; other site 536056013153 Switch I region; other site 536056013154 G2 box; other site 536056013155 G3 box; other site 536056013156 Switch II region; other site 536056013157 G4 box; other site 536056013158 G5 box; other site 536056013159 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 536056013160 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 536056013161 glutamine synthetase; Provisional; Region: glnA; PRK09469 536056013162 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 536056013163 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 536056013164 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 536056013165 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 536056013166 putative active site [active] 536056013167 heme pocket [chemical binding]; other site 536056013168 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 536056013169 dimer interface [polypeptide binding]; other site 536056013170 phosphorylation site [posttranslational modification] 536056013171 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 536056013172 ATP binding site [chemical binding]; other site 536056013173 Mg2+ binding site [ion binding]; other site 536056013174 G-X-G motif; other site 536056013175 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 536056013176 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 536056013177 active site 536056013178 phosphorylation site [posttranslational modification] 536056013179 intermolecular recognition site; other site 536056013180 dimerization interface [polypeptide binding]; other site 536056013181 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 536056013182 Walker A motif; other site 536056013183 ATP binding site [chemical binding]; other site 536056013184 Walker B motif; other site 536056013185 arginine finger; other site 536056013186 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 536056013187 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 536056013188 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 536056013189 FeS/SAM binding site; other site 536056013190 HemN C-terminal domain; Region: HemN_C; pfam06969 536056013191 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3078 536056013192 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 536056013193 G1 box; other site 536056013194 GTP/Mg2+ binding site [chemical binding]; other site 536056013195 Switch I region; other site 536056013196 G2 box; other site 536056013197 G3 box; other site 536056013198 Switch II region; other site 536056013199 G4 box; other site 536056013200 G5 box; other site 536056013201 DNA polymerase I; Provisional; Region: PRK05755 536056013202 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 536056013203 active site 536056013204 metal binding site 1 [ion binding]; metal-binding site 536056013205 putative 5' ssDNA interaction site; other site 536056013206 metal binding site 3; metal-binding site 536056013207 metal binding site 2 [ion binding]; metal-binding site 536056013208 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 536056013209 putative DNA binding site [nucleotide binding]; other site 536056013210 putative metal binding site [ion binding]; other site 536056013211 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 536056013212 active site 536056013213 catalytic site [active] 536056013214 substrate binding site [chemical binding]; other site 536056013215 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 536056013216 active site 536056013217 DNA binding site [nucleotide binding] 536056013218 catalytic site [active] 536056013219 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 536056013220 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 536056013221 putative acyl-acceptor binding pocket; other site 536056013222 hypothetical protein; Provisional; Region: PRK11367 536056013223 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 536056013224 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 536056013225 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 536056013226 catalytic residues [active] 536056013227 hinge region; other site 536056013228 alpha helical domain; other site 536056013229 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 536056013230 serine/threonine protein kinase; Provisional; Region: PRK11768 536056013231 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 536056013232 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 536056013233 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 536056013234 GTP binding site; other site 536056013235 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 536056013236 Walker A motif; other site 536056013237 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 536056013238 potassium transporter; Provisional; Region: PRK10750 536056013239 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 536056013240 hypothetical protein; Provisional; Region: PRK11568 536056013241 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 536056013242 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 536056013243 proline dipeptidase; Provisional; Region: PRK13607 536056013244 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 536056013245 active site 536056013246 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 536056013247 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 536056013248 substrate binding site [chemical binding]; other site 536056013249 oxyanion hole (OAH) forming residues; other site 536056013250 trimer interface [polypeptide binding]; other site 536056013251 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 536056013252 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 536056013253 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 536056013254 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 536056013255 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 536056013256 dimer interface [polypeptide binding]; other site 536056013257 active site 536056013258 FMN reductase; Validated; Region: fre; PRK08051 536056013259 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 536056013260 FAD binding pocket [chemical binding]; other site 536056013261 FAD binding motif [chemical binding]; other site 536056013262 phosphate binding motif [ion binding]; other site 536056013263 beta-alpha-beta structure motif; other site 536056013264 NAD binding pocket [chemical binding]; other site 536056013265 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 536056013266 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 536056013267 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 536056013268 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 536056013269 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 536056013270 active site 536056013271 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 536056013272 sec-independent translocase; Provisional; Region: PRK01770 536056013273 sec-independent translocase; Provisional; Region: tatB; PRK00404 536056013274 twin arginine translocase protein A; Provisional; Region: tatA; PRK03554 536056013275 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 536056013276 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 536056013277 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 536056013278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 536056013279 SCP-2 sterol transfer family; Region: SCP2; pfam02036 536056013280 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 536056013281 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 536056013282 S-adenosylmethionine binding site [chemical binding]; other site 536056013283 DNA recombination protein RmuC; Provisional; Region: PRK10361 536056013284 RmuC family; Region: RmuC; pfam02646 536056013285 uridine phosphorylase; Provisional; Region: PRK11178 536056013286 uridine phosphorylase; Region: Uridine-psphlse; TIGR01718 536056013287 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 536056013288 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 536056013289 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 536056013290 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 536056013291 THF binding site; other site 536056013292 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 536056013293 substrate binding site [chemical binding]; other site 536056013294 THF binding site; other site 536056013295 zinc-binding site [ion binding]; other site 536056013296 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 536056013297 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056013298 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 536056013299 putative dimerization interface [polypeptide binding]; other site 536056013300 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 536056013301 EamA-like transporter family; Region: EamA; pfam00892 536056013302 putative hydrolase; Provisional; Region: PRK10976 536056013303 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 536056013304 active site 536056013305 motif I; other site 536056013306 motif II; other site 536056013307 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 536056013308 lysophospholipase L2; Provisional; Region: PRK10749 536056013309 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 536056013310 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 536056013311 threonine efflux system; Provisional; Region: PRK10229 536056013312 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 536056013313 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 536056013314 ATP binding site [chemical binding]; other site 536056013315 putative Mg++ binding site [ion binding]; other site 536056013316 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 536056013317 nucleotide binding region [chemical binding]; other site 536056013318 ATP-binding site [chemical binding]; other site 536056013319 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 536056013320 Helicase and RNase D C-terminal; Region: HRDC; smart00341 536056013321 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 536056013322 dimerization interface [polypeptide binding]; other site 536056013323 substrate binding site [chemical binding]; other site 536056013324 active site 536056013325 calcium binding site [ion binding]; other site 536056013326 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 536056013327 CoenzymeA binding site [chemical binding]; other site 536056013328 subunit interaction site [polypeptide binding]; other site 536056013329 PHB binding site; other site 536056013330 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 536056013331 EamA-like transporter family; Region: EamA; cl17759 536056013332 hypothetical protein; Provisional; Region: PRK11371 536056013333 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 536056013334 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 536056013335 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 536056013336 Cl binding site [ion binding]; other site 536056013337 oligomer interface [polypeptide binding]; other site 536056013338 Predicted periplasmic protein [Function unknown]; Region: COG3698 536056013339 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 536056013340 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 536056013341 Part of AAA domain; Region: AAA_19; pfam13245 536056013342 Family description; Region: UvrD_C_2; pfam13538 536056013343 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 536056013344 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 536056013345 motif II; other site 536056013346 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 536056013347 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 536056013348 active site 536056013349 DNA binding site [nucleotide binding] 536056013350 Int/Topo IB signature motif; other site 536056013351 hypothetical protein; Provisional; Region: PRK10963 536056013352 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 536056013353 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 536056013354 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 536056013355 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 536056013356 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 536056013357 putative iron binding site [ion binding]; other site 536056013358 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 536056013359 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 536056013360 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 536056013361 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 536056013362 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 536056013363 domain interfaces; other site 536056013364 active site 536056013365 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 536056013366 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 536056013367 active site 536056013368 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 536056013369 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 536056013370 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 536056013371 HemY protein N-terminus; Region: HemY_N; pfam07219 536056013372 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 536056013373 Sulfatase; Region: Sulfatase; pfam00884 536056013374 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 536056013375 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 536056013376 FeS/SAM binding site; other site 536056013377 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 536056013378 putative transport protein YifK; Provisional; Region: PRK10746 536056013379 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 536056013380 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 536056013381 putative common antigen polymerase; Provisional; Region: PRK02975 536056013382 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 536056013383 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 536056013384 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 536056013385 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 536056013386 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 536056013387 inhibitor-cofactor binding pocket; inhibition site 536056013388 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056013389 catalytic residue [active] 536056013390 TDP-fucosamine acetyltransferase; Provisional; Region: PRK10975 536056013391 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 536056013392 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 536056013393 substrate binding site; other site 536056013394 tetramer interface; other site 536056013395 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 536056013396 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 536056013397 NAD binding site [chemical binding]; other site 536056013398 substrate binding site [chemical binding]; other site 536056013399 homodimer interface [polypeptide binding]; other site 536056013400 active site 536056013401 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 536056013402 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 536056013403 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 536056013404 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 536056013405 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 536056013406 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 536056013407 active site 536056013408 homodimer interface [polypeptide binding]; other site 536056013409 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 536056013410 Chain length determinant protein; Region: Wzz; pfam02706 536056013411 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase; Provisional; Region: PRK15119 536056013412 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 536056013413 Mg++ binding site [ion binding]; other site 536056013414 putative catalytic motif [active] 536056013415 substrate binding site [chemical binding]; other site 536056013416 transcription termination factor Rho; Provisional; Region: rho; PRK09376 536056013417 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 536056013418 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 536056013419 RNA binding site [nucleotide binding]; other site 536056013420 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 536056013421 multimer interface [polypeptide binding]; other site 536056013422 Walker A motif; other site 536056013423 ATP binding site [chemical binding]; other site 536056013424 Walker B motif; other site 536056013425 putative rho operon leader peptide; Provisional; Region: PRK09979 536056013426 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 536056013427 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 536056013428 catalytic residues [active] 536056013429 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 536056013430 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 536056013431 ATP binding site [chemical binding]; other site 536056013432 Mg++ binding site [ion binding]; other site 536056013433 motif III; other site 536056013434 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 536056013435 nucleotide binding region [chemical binding]; other site 536056013436 ATP-binding site [chemical binding]; other site 536056013437 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 536056013438 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 536056013439 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 536056013440 Part of AAA domain; Region: AAA_19; pfam13245 536056013441 Family description; Region: UvrD_C_2; pfam13538 536056013442 PemK-like protein; Region: PemK; cl00995 536056013443 peptidyl-prolyl cis-trans isomerase C; Provisional; Region: PRK15441 536056013444 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 536056013445 ketol-acid reductoisomerase; Validated; Region: PRK05225 536056013446 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 536056013447 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 536056013448 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 536056013449 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056013450 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 536056013451 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 536056013452 putative dimerization interface [polypeptide binding]; other site 536056013453 threonine dehydratase; Reviewed; Region: PRK09224 536056013454 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 536056013455 tetramer interface [polypeptide binding]; other site 536056013456 pyridoxal 5'-phosphate binding site [chemical binding]; other site 536056013457 catalytic residue [active] 536056013458 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 536056013459 putative Ile/Val binding site [chemical binding]; other site 536056013460 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 536056013461 putative Ile/Val binding site [chemical binding]; other site 536056013462 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 536056013463 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 536056013464 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 536056013465 homodimer interface [polypeptide binding]; other site 536056013466 substrate-cofactor binding pocket; other site 536056013467 catalytic residue [active] 536056013468 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 536056013469 putative ATP-dependent protease; Provisional; Region: PRK09862 536056013470 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 536056013471 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 536056013472 Walker A motif; other site 536056013473 ATP binding site [chemical binding]; other site 536056013474 Walker B motif; other site 536056013475 arginine finger; other site 536056013476 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 536056013477 hypothetical protein; Provisional; Region: PRK11027 536056013478 transcriptional regulator HdfR; Provisional; Region: PRK03601 536056013479 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056013480 LysR substrate binding domain; Region: LysR_substrate; pfam03466 536056013481 dimerization interface [polypeptide binding]; other site 536056013482 Transcriptional regulators [Transcription]; Region: FadR; COG2186 536056013483 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 536056013484 DNA-binding site [nucleotide binding]; DNA binding site 536056013485 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 536056013486 putative transporter; Provisional; Region: PRK10504 536056013487 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 536056013488 putative substrate translocation pore; other site 536056013489 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 536056013490 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 536056013491 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 536056013492 substrate binding site [chemical binding]; other site 536056013493 dimer interface [polypeptide binding]; other site 536056013494 ATP binding site [chemical binding]; other site 536056013495 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 536056013496 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 536056013497 ligand binding site [chemical binding]; other site 536056013498 dimerization interface [polypeptide binding]; other site 536056013499 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 536056013500 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 536056013501 TM-ABC transporter signature motif; other site 536056013502 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 536056013503 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 536056013504 Walker A/P-loop; other site 536056013505 ATP binding site [chemical binding]; other site 536056013506 Q-loop/lid; other site 536056013507 ABC transporter signature motif; other site 536056013508 Walker B; other site 536056013509 D-loop; other site 536056013510 H-loop/switch region; other site 536056013511 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 536056013512 D-ribose pyranase; Provisional; Region: PRK11797 536056013513 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 536056013514 potassium uptake protein; Region: kup; TIGR00794 536056013515 regulatory ATPase RavA; Provisional; Region: PRK13531 536056013516 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 536056013517 Walker A motif; other site 536056013518 ATP binding site [chemical binding]; other site 536056013519 Walker B motif; other site 536056013520 arginine finger; other site 536056013521 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 536056013522 hypothetical protein; Provisional; Region: yieM; PRK10997 536056013523 VWA YIEM type: 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_YIEM_type; cd01462 536056013524 metal ion-dependent adhesion site (MIDAS); other site 536056013525 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 536056013526 dimer interface [polypeptide binding]; other site 536056013527 active site 536056013528 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 536056013529 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 536056013530 putative DNA binding site [nucleotide binding]; other site 536056013531 putative Zn2+ binding site [ion binding]; other site 536056013532 AsnC family; Region: AsnC_trans_reg; pfam01037 536056013533 FMN-binding protein MioC; Provisional; Region: PRK09004 536056013534 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 536056013535 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 536056013536 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 536056013537 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 536056013538 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 536056013539 S-adenosylmethionine binding site [chemical binding]; other site 536056013540 F0F1 ATP synthase subunit I; Validated; Region: PRK08049 536056013541 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 536056013542 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 536056013543 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 536056013544 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 536056013545 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 536056013546 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 536056013547 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 536056013548 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 536056013549 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 536056013550 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 536056013551 beta subunit interaction interface [polypeptide binding]; other site 536056013552 Walker A motif; other site 536056013553 ATP binding site [chemical binding]; other site 536056013554 Walker B motif; other site 536056013555 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 536056013556 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 536056013557 core domain interface [polypeptide binding]; other site 536056013558 delta subunit interface [polypeptide binding]; other site 536056013559 epsilon subunit interface [polypeptide binding]; other site 536056013560 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 536056013561 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 536056013562 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 536056013563 alpha subunit interaction interface [polypeptide binding]; other site 536056013564 Walker A motif; other site 536056013565 ATP binding site [chemical binding]; other site 536056013566 Walker B motif; other site 536056013567 inhibitor binding site; inhibition site 536056013568 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 536056013569 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 536056013570 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 536056013571 gamma subunit interface [polypeptide binding]; other site 536056013572 epsilon subunit interface [polypeptide binding]; other site 536056013573 LBP interface [polypeptide binding]; other site 536056013574 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 536056013575 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 536056013576 Substrate binding site; other site 536056013577 Mg++ binding site; other site 536056013578 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 536056013579 active site 536056013580 substrate binding site [chemical binding]; other site 536056013581 CoA binding site [chemical binding]; other site 536056013582 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 536056013583 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 536056013584 glutaminase active site [active] 536056013585 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 536056013586 dimer interface [polypeptide binding]; other site 536056013587 active site 536056013588 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 536056013589 dimer interface [polypeptide binding]; other site 536056013590 active site 536056013591 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 536056013592 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 536056013593 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 536056013594 dimer interface [polypeptide binding]; other site 536056013595 conserved gate region; other site 536056013596 putative PBP binding loops; other site 536056013597 ABC-ATPase subunit interface; other site 536056013598 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 536056013599 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 536056013600 dimer interface [polypeptide binding]; other site 536056013601 conserved gate region; other site 536056013602 putative PBP binding loops; other site 536056013603 ABC-ATPase subunit interface; other site 536056013604 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 536056013605 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 536056013606 Walker A/P-loop; other site 536056013607 ATP binding site [chemical binding]; other site 536056013608 Q-loop/lid; other site 536056013609 ABC transporter signature motif; other site 536056013610 Walker B; other site 536056013611 D-loop; other site 536056013612 H-loop/switch region; other site 536056013613 transcriptional regulator PhoU; Provisional; Region: PRK11115 536056013614 PhoU domain; Region: PhoU; pfam01895 536056013615 PhoU domain; Region: PhoU; pfam01895 536056013616 transcriptional antiterminator BglG; Provisional; Region: PRK09772 536056013617 CAT RNA binding domain; Region: CAT_RBD; pfam03123 536056013618 PRD domain; Region: PRD; pfam00874 536056013619 PRD domain; Region: PRD; pfam00874 536056013620 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 536056013621 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 536056013622 active site turn [active] 536056013623 phosphorylation site [posttranslational modification] 536056013624 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 536056013625 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 536056013626 HPr interaction site; other site 536056013627 glycerol kinase (GK) interaction site [polypeptide binding]; other site 536056013628 active site 536056013629 phosphorylation site [posttranslational modification] 536056013630 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 536056013631 beta-galactosidase; Region: BGL; TIGR03356 536056013632 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 536056013633 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 536056013634 trimer interface; other site 536056013635 sugar binding site [chemical binding]; other site 536056013636 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 536056013637 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 536056013638 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 536056013639 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 536056013640 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 536056013641 active site 536056013642 trimer interface [polypeptide binding]; other site 536056013643 allosteric site; other site 536056013644 active site lid [active] 536056013645 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3196 536056013646 putative inner membrane protein; Provisional; Region: PRK09823 536056013647 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 536056013648 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 536056013649 active site 536056013650 motif I; other site 536056013651 motif II; other site 536056013652 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 536056013653 Predicted flavoprotein [General function prediction only]; Region: COG0431 536056013654 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 536056013655 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 536056013656 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 536056013657 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 536056013658 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 536056013659 substrate binding pocket [chemical binding]; other site 536056013660 dimerization interface [polypeptide binding]; other site 536056013661 multidrug efflux system protein MdtL; Provisional; Region: PRK10473 536056013662 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 536056013663 putative substrate translocation pore; other site 536056013664 tryptophan permease TnaB; Provisional; Region: PRK09664 536056013665 aromatic amino acid transport protein; Region: araaP; TIGR00837 536056013666 tryptophanase, leader peptide-associated; Region: tnaA_trp_ase; TIGR02617 536056013667 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 536056013668 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 536056013669 catalytic residue [active] 536056013670 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 536056013671 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 536056013672 trmE is a tRNA modification GTPase; Region: trmE; cd04164 536056013673 G1 box; other site 536056013674 GTP/Mg2+ binding site [chemical binding]; other site 536056013675 Switch I region; other site 536056013676 G2 box; other site 536056013677 Switch II region; other site 536056013678 G3 box; other site 536056013679 G4 box; other site 536056013680 G5 box; other site 536056013681 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 536056013682 membrane protein insertase; Provisional; Region: PRK01318 536056013683 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 536056013684 ribonuclease P; Reviewed; Region: rnpA; PRK01732 536056013685 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399