-- dump date 20140619_065950 -- class Genbank::misc_feature -- table misc_feature_note -- id note 634503000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 634503000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 634503000003 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 634503000004 Walker A motif; other site 634503000005 ATP binding site [chemical binding]; other site 634503000006 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 634503000007 Walker B motif; other site 634503000008 arginine finger; other site 634503000009 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 634503000010 DnaA box-binding interface [nucleotide binding]; other site 634503000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 634503000012 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 634503000013 putative DNA binding surface [nucleotide binding]; other site 634503000014 dimer interface [polypeptide binding]; other site 634503000015 beta-clamp/clamp loader binding surface; other site 634503000016 beta-clamp/translesion DNA polymerase binding surface; other site 634503000017 recF protein; Region: recf; TIGR00611 634503000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634503000019 Walker A/P-loop; other site 634503000020 ATP binding site [chemical binding]; other site 634503000021 Q-loop/lid; other site 634503000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634503000023 ABC transporter signature motif; other site 634503000024 Walker B; other site 634503000025 D-loop; other site 634503000026 H-loop/switch region; other site 634503000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 634503000028 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 634503000029 Mg2+ binding site [ion binding]; other site 634503000030 G-X-G motif; other site 634503000031 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 634503000032 anchoring element; other site 634503000033 dimer interface [polypeptide binding]; other site 634503000034 ATP binding site [chemical binding]; other site 634503000035 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 634503000036 active site 634503000037 putative metal-binding site [ion binding]; other site 634503000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 634503000039 sugar phosphate phosphatase; Provisional; Region: PRK10513 634503000040 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 634503000041 active site 634503000042 motif I; other site 634503000043 motif II; other site 634503000044 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 634503000045 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 634503000046 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 634503000047 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 634503000048 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 634503000049 putative dimer interface [polypeptide binding]; other site 634503000050 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 634503000051 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 634503000052 putative dimer interface [polypeptide binding]; other site 634503000053 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 634503000054 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 634503000055 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503000056 homodimer interface [polypeptide binding]; other site 634503000057 catalytic residue [active] 634503000058 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 634503000059 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 634503000060 DALR anticodon binding domain; Region: DALR_1; pfam05746 634503000061 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 634503000062 dimer interface [polypeptide binding]; other site 634503000063 motif 1; other site 634503000064 active site 634503000065 motif 2; other site 634503000066 motif 3; other site 634503000067 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 634503000068 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 634503000069 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634503000070 Coenzyme A binding pocket [chemical binding]; other site 634503000071 Predicted membrane protein [Function unknown]; Region: COG2119 634503000072 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 634503000073 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 634503000074 putative outer membrane lipoprotein; Provisional; Region: PRK10510 634503000075 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 634503000076 ligand binding site [chemical binding]; other site 634503000077 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 634503000078 CPxP motif; other site 634503000079 hypothetical protein; Provisional; Region: PRK11212 634503000080 hypothetical protein; Provisional; Region: PRK11615 634503000081 AsmA family; Region: AsmA; pfam05170 634503000082 AsmA family; Region: AsmA; pfam05170 634503000083 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 634503000084 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 634503000085 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 634503000086 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 634503000087 generic binding surface II; other site 634503000088 ssDNA binding site; other site 634503000089 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 634503000090 ATP binding site [chemical binding]; other site 634503000091 putative Mg++ binding site [ion binding]; other site 634503000092 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 634503000093 nucleotide binding region [chemical binding]; other site 634503000094 ATP-binding site [chemical binding]; other site 634503000095 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 634503000096 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 634503000097 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 634503000098 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 634503000099 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 634503000100 Zn2+ binding site [ion binding]; other site 634503000101 Mg2+ binding site [ion binding]; other site 634503000102 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 634503000103 synthetase active site [active] 634503000104 NTP binding site [chemical binding]; other site 634503000105 metal binding site [ion binding]; metal-binding site 634503000106 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 634503000107 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 634503000108 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 634503000109 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 634503000110 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 634503000111 catalytic site [active] 634503000112 G-X2-G-X-G-K; other site 634503000113 Predicted membrane protein [Function unknown]; Region: COG2860 634503000114 UPF0126 domain; Region: UPF0126; pfam03458 634503000115 UPF0126 domain; Region: UPF0126; pfam03458 634503000116 Transposase; Region: HTH_Tnp_1; cl17663 634503000117 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 634503000118 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 634503000119 ATP binding site [chemical binding]; other site 634503000120 putative Mg++ binding site [ion binding]; other site 634503000121 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 634503000122 HsdM N-terminal domain; Region: HsdM_N; pfam12161 634503000123 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 634503000124 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 634503000125 S-adenosylmethionine binding site [chemical binding]; other site 634503000126 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634503000127 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634503000128 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634503000129 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634503000130 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503000131 MULE transposase domain; Region: MULE; pfam10551 634503000132 Protein of unknown function DUF91; Region: DUF91; cl00709 634503000133 hypothetical protein; Provisional; Region: PRK11820 634503000134 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 634503000135 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 634503000136 ribonuclease PH; Reviewed; Region: rph; PRK00173 634503000137 Ribonuclease PH; Region: RNase_PH_bact; cd11362 634503000138 hexamer interface [polypeptide binding]; other site 634503000139 active site 634503000140 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634503000141 active site 634503000142 division inhibitor protein; Provisional; Region: slmA; PRK09480 634503000143 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634503000144 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 634503000145 trimer interface [polypeptide binding]; other site 634503000146 active site 634503000147 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 634503000148 Flavoprotein; Region: Flavoprotein; pfam02441 634503000149 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 634503000150 hypothetical protein; Reviewed; Region: PRK00024 634503000151 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 634503000152 MPN+ (JAMM) motif; other site 634503000153 Zinc-binding site [ion binding]; other site 634503000154 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 634503000155 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 634503000156 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 634503000157 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 634503000158 DNA binding site [nucleotide binding] 634503000159 catalytic residue [active] 634503000160 H2TH interface [polypeptide binding]; other site 634503000161 putative catalytic residues [active] 634503000162 turnover-facilitating residue; other site 634503000163 intercalation triad [nucleotide binding]; other site 634503000164 8OG recognition residue [nucleotide binding]; other site 634503000165 putative reading head residues; other site 634503000166 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 634503000167 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 634503000168 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 634503000169 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 634503000170 active site 634503000171 (T/H)XGH motif; other site 634503000172 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 634503000173 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 634503000174 putative metal binding site; other site 634503000175 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 634503000176 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 634503000177 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 634503000178 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634503000179 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 634503000180 putative ADP-binding pocket [chemical binding]; other site 634503000181 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 634503000182 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634503000183 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 634503000184 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 634503000185 putative active site [active] 634503000186 Putative catalytic domain of lipopolysaccharide biosynthesis protein WalW and its bacterial homologs; Region: CE4_WalW; cd10935 634503000187 putative active site [active] 634503000188 putative catalytic site [active] 634503000189 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 634503000190 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 634503000191 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634503000192 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 634503000193 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 634503000194 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 634503000195 putative active site [active] 634503000196 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 634503000197 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 634503000198 putative active site [active] 634503000199 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 634503000200 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 634503000201 NADP binding site [chemical binding]; other site 634503000202 homopentamer interface [polypeptide binding]; other site 634503000203 substrate binding site [chemical binding]; other site 634503000204 active site 634503000205 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 634503000206 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 634503000207 substrate-cofactor binding pocket; other site 634503000208 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503000209 catalytic residue [active] 634503000210 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 634503000211 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 634503000212 NAD(P) binding site [chemical binding]; other site 634503000213 putative ATP-dependent protease; Provisional; Region: PRK09862 634503000214 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 634503000215 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 634503000216 Walker A motif; other site 634503000217 ATP binding site [chemical binding]; other site 634503000218 Walker B motif; other site 634503000219 arginine finger; other site 634503000220 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 634503000221 putative sialic acid transporter; Region: 2A0112; TIGR00891 634503000222 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 634503000223 putative substrate translocation pore; other site 634503000224 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 634503000225 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 634503000226 PYR/PP interface [polypeptide binding]; other site 634503000227 dimer interface [polypeptide binding]; other site 634503000228 TPP binding site [chemical binding]; other site 634503000229 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634503000230 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 634503000231 TPP-binding site [chemical binding]; other site 634503000232 dimer interface [polypeptide binding]; other site 634503000233 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 634503000234 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 634503000235 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 634503000236 homodimer interface [polypeptide binding]; other site 634503000237 substrate-cofactor binding pocket; other site 634503000238 catalytic residue [active] 634503000239 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 634503000240 threonine dehydratase; Reviewed; Region: PRK09224 634503000241 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 634503000242 tetramer interface [polypeptide binding]; other site 634503000243 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503000244 catalytic residue [active] 634503000245 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 634503000246 putative Ile/Val binding site [chemical binding]; other site 634503000247 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 634503000248 putative Ile/Val binding site [chemical binding]; other site 634503000249 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503000250 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 634503000251 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 634503000252 dimerization interface [polypeptide binding]; other site 634503000253 ketol-acid reductoisomerase; Validated; Region: PRK05225 634503000254 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 634503000255 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 634503000256 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 634503000257 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 634503000258 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 634503000259 Part of AAA domain; Region: AAA_19; pfam13245 634503000260 Family description; Region: UvrD_C_2; pfam13538 634503000261 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 634503000262 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 634503000263 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 634503000264 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 634503000265 ATP binding site [chemical binding]; other site 634503000266 Mg++ binding site [ion binding]; other site 634503000267 motif III; other site 634503000268 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 634503000269 nucleotide binding region [chemical binding]; other site 634503000270 ATP-binding site [chemical binding]; other site 634503000271 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 634503000272 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 634503000273 catalytic residues [active] 634503000274 transcription termination factor Rho; Provisional; Region: rho; PRK09376 634503000275 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 634503000276 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 634503000277 RNA binding site [nucleotide binding]; other site 634503000278 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 634503000279 multimer interface [polypeptide binding]; other site 634503000280 Walker A motif; other site 634503000281 ATP binding site [chemical binding]; other site 634503000282 Walker B motif; other site 634503000283 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 634503000284 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 634503000285 Mg++ binding site [ion binding]; other site 634503000286 putative catalytic motif [active] 634503000287 substrate binding site [chemical binding]; other site 634503000288 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 634503000289 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 634503000290 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 634503000291 active site 634503000292 homodimer interface [polypeptide binding]; other site 634503000293 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 634503000294 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 634503000295 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 634503000296 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 634503000297 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 634503000298 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 634503000299 NAD binding site [chemical binding]; other site 634503000300 substrate binding site [chemical binding]; other site 634503000301 homodimer interface [polypeptide binding]; other site 634503000302 active site 634503000303 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 634503000304 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 634503000305 substrate binding site; other site 634503000306 tetramer interface; other site 634503000307 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634503000308 Coenzyme A binding pocket [chemical binding]; other site 634503000309 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 634503000310 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 634503000311 inhibitor-cofactor binding pocket; inhibition site 634503000312 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503000313 catalytic residue [active] 634503000314 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 634503000315 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; cl07929 634503000316 putative common antigen polymerase; Provisional; Region: PRK02975 634503000317 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 634503000318 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 634503000319 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 634503000320 HemY protein N-terminus; Region: HemY_N; pfam07219 634503000321 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 634503000322 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 634503000323 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 634503000324 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 634503000325 active site 634503000326 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 634503000327 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 634503000328 domain interfaces; other site 634503000329 active site 634503000330 adenylate cyclase; Provisional; Region: cyaA; PRK09450 634503000331 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 634503000332 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 634503000333 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 634503000334 putative iron binding site [ion binding]; other site 634503000335 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 634503000336 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 634503000337 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 634503000338 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 634503000339 hypothetical protein; Provisional; Region: PRK10963 634503000340 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 634503000341 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 634503000342 active site 634503000343 DNA binding site [nucleotide binding] 634503000344 Int/Topo IB signature motif; other site 634503000345 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 634503000346 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 634503000347 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 634503000348 Part of AAA domain; Region: AAA_19; pfam13245 634503000349 Family description; Region: UvrD_C_2; pfam13538 634503000350 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 634503000351 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 634503000352 Cl binding site [ion binding]; other site 634503000353 oligomer interface [polypeptide binding]; other site 634503000354 Putative ammonia monooxygenase; Region: AmoA; pfam05145 634503000355 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 634503000356 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 634503000357 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 634503000358 dimerization interface [polypeptide binding]; other site 634503000359 substrate binding site [chemical binding]; other site 634503000360 active site 634503000361 calcium binding site [ion binding]; other site 634503000362 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 634503000363 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 634503000364 ATP binding site [chemical binding]; other site 634503000365 putative Mg++ binding site [ion binding]; other site 634503000366 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 634503000367 nucleotide binding region [chemical binding]; other site 634503000368 ATP-binding site [chemical binding]; other site 634503000369 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 634503000370 HRDC domain; Region: HRDC; pfam00570 634503000371 LysE type translocator; Region: LysE; cl00565 634503000372 low affinity gluconate transporter; Provisional; Region: PRK10472 634503000373 gluconate transporter; Region: gntP; TIGR00791 634503000374 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 634503000375 AAA domain; Region: AAA_33; pfam13671 634503000376 ATP-binding site [chemical binding]; other site 634503000377 Gluconate-6-phosphate binding site [chemical binding]; other site 634503000378 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 634503000379 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 634503000380 DNA binding site [nucleotide binding] 634503000381 domain linker motif; other site 634503000382 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 634503000383 putative ligand binding site [chemical binding]; other site 634503000384 putative dimerization interface [polypeptide binding]; other site 634503000385 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 634503000386 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 634503000387 metal-binding site [ion binding] 634503000388 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 634503000389 Soluble P-type ATPase [General function prediction only]; Region: COG4087 634503000390 Surface antigen; Region: Bac_surface_Ag; pfam01103 634503000391 Protein of unknown function (DUF4056); Region: DUF4056; pfam13265 634503000392 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 634503000393 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 634503000394 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 634503000395 THF binding site; other site 634503000396 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 634503000397 substrate binding site [chemical binding]; other site 634503000398 THF binding site; other site 634503000399 zinc-binding site [ion binding]; other site 634503000400 uridine phosphorylase; Provisional; Region: PRK11178 634503000401 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 634503000402 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 634503000403 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 634503000404 DNA recombination protein RmuC; Provisional; Region: PRK10361 634503000405 RmuC family; Region: RmuC; pfam02646 634503000406 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 634503000407 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 634503000408 S-adenosylmethionine binding site [chemical binding]; other site 634503000409 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 634503000410 SCP-2 sterol transfer family; Region: SCP2; pfam02036 634503000411 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 634503000412 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 634503000413 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 634503000414 sec-independent translocase; Provisional; Region: PRK01770 634503000415 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 634503000416 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 634503000417 active site 634503000418 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 634503000419 dimer interface [polypeptide binding]; other site 634503000420 active site 634503000421 aspartate-rich active site metal binding site; other site 634503000422 allosteric magnesium binding site [ion binding]; other site 634503000423 Schiff base residues; other site 634503000424 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 634503000425 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 634503000426 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 634503000427 heterodimer interface [polypeptide binding]; other site 634503000428 homodimer interface [polypeptide binding]; other site 634503000429 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 634503000430 active site pocket [active] 634503000431 oxyanion hole [active] 634503000432 catalytic triad [active] 634503000433 active site nucleophile [active] 634503000434 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 634503000435 FMN reductase; Validated; Region: fre; PRK08051 634503000436 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 634503000437 FAD binding pocket [chemical binding]; other site 634503000438 FAD binding motif [chemical binding]; other site 634503000439 phosphate binding motif [ion binding]; other site 634503000440 beta-alpha-beta structure motif; other site 634503000441 NAD binding pocket [chemical binding]; other site 634503000442 proline dipeptidase; Provisional; Region: PRK13607 634503000443 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 634503000444 active site 634503000445 hypothetical protein; Provisional; Region: PRK11568 634503000446 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 634503000447 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 634503000448 potassium transporter; Provisional; Region: PRK10750 634503000449 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 634503000450 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 634503000451 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 634503000452 FAD binding domain; Region: FAD_binding_4; pfam01565 634503000453 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 634503000454 Biotin operon repressor [Transcription]; Region: BirA; COG1654 634503000455 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 634503000456 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 634503000457 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 634503000458 pantothenate kinase; Provisional; Region: PRK05439 634503000459 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 634503000460 ATP-binding site [chemical binding]; other site 634503000461 CoA-binding site [chemical binding]; other site 634503000462 Mg2+-binding site [ion binding]; other site 634503000463 elongation factor Tu; Reviewed; Region: PRK00049 634503000464 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 634503000465 G1 box; other site 634503000466 GEF interaction site [polypeptide binding]; other site 634503000467 GTP/Mg2+ binding site [chemical binding]; other site 634503000468 Switch I region; other site 634503000469 G2 box; other site 634503000470 G3 box; other site 634503000471 Switch II region; other site 634503000472 G4 box; other site 634503000473 G5 box; other site 634503000474 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 634503000475 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 634503000476 Antibiotic Binding Site [chemical binding]; other site 634503000477 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 634503000478 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 634503000479 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 634503000480 putative homodimer interface [polypeptide binding]; other site 634503000481 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 634503000482 heterodimer interface [polypeptide binding]; other site 634503000483 homodimer interface [polypeptide binding]; other site 634503000484 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 634503000485 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 634503000486 23S rRNA interface [nucleotide binding]; other site 634503000487 L7/L12 interface [polypeptide binding]; other site 634503000488 putative thiostrepton binding site; other site 634503000489 L25 interface [polypeptide binding]; other site 634503000490 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 634503000491 mRNA/rRNA interface [nucleotide binding]; other site 634503000492 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 634503000493 23S rRNA interface [nucleotide binding]; other site 634503000494 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 634503000495 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 634503000496 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 634503000497 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 634503000498 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 634503000499 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 634503000500 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 634503000501 RPB3 interaction site [polypeptide binding]; other site 634503000502 RPB1 interaction site [polypeptide binding]; other site 634503000503 RPB11 interaction site [polypeptide binding]; other site 634503000504 RPB10 interaction site [polypeptide binding]; other site 634503000505 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 634503000506 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 634503000507 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 634503000508 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 634503000509 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 634503000510 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 634503000511 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 634503000512 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 634503000513 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 634503000514 DNA binding site [nucleotide binding] 634503000515 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 634503000516 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 634503000517 thiamine phosphate binding site [chemical binding]; other site 634503000518 active site 634503000519 pyrophosphate binding site [ion binding]; other site 634503000520 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 634503000521 ThiC-associated domain; Region: ThiC-associated; pfam13667 634503000522 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 634503000523 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 634503000524 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 634503000525 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 634503000526 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 634503000527 putative NADH binding site [chemical binding]; other site 634503000528 putative active site [active] 634503000529 nudix motif; other site 634503000530 putative metal binding site [ion binding]; other site 634503000531 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 634503000532 substrate binding site [chemical binding]; other site 634503000533 active site 634503000534 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 634503000535 Active_site [active] 634503000536 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 634503000537 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 634503000538 IHF dimer interface [polypeptide binding]; other site 634503000539 IHF - DNA interface [nucleotide binding]; other site 634503000540 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 634503000541 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 634503000542 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 634503000543 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 634503000544 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 634503000545 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 634503000546 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 634503000547 purine monophosphate binding site [chemical binding]; other site 634503000548 dimer interface [polypeptide binding]; other site 634503000549 putative catalytic residues [active] 634503000550 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 634503000551 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 634503000552 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 634503000553 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 634503000554 Na binding site [ion binding]; other site 634503000555 Predicted membrane protein [Function unknown]; Region: COG3162 634503000556 acetyl-CoA synthetase; Provisional; Region: PRK00174 634503000557 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 634503000558 active site 634503000559 CoA binding site [chemical binding]; other site 634503000560 acyl-activating enzyme (AAE) consensus motif; other site 634503000561 AMP binding site [chemical binding]; other site 634503000562 acetate binding site [chemical binding]; other site 634503000563 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 634503000564 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 634503000565 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 634503000566 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 634503000567 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 634503000568 dimer interface [polypeptide binding]; other site 634503000569 ADP-ribose binding site [chemical binding]; other site 634503000570 active site 634503000571 nudix motif; other site 634503000572 metal binding site [ion binding]; metal-binding site 634503000573 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 634503000574 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 634503000575 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 634503000576 active site 634503000577 metal binding site [ion binding]; metal-binding site 634503000578 hexamer interface [polypeptide binding]; other site 634503000579 esterase YqiA; Provisional; Region: PRK11071 634503000580 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 634503000581 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 634503000582 ATP binding site [chemical binding]; other site 634503000583 Mg2+ binding site [ion binding]; other site 634503000584 G-X-G motif; other site 634503000585 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 634503000586 anchoring element; other site 634503000587 dimer interface [polypeptide binding]; other site 634503000588 ATP binding site [chemical binding]; other site 634503000589 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 634503000590 active site 634503000591 metal binding site [ion binding]; metal-binding site 634503000592 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 634503000593 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 634503000594 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 634503000595 CAP-like domain; other site 634503000596 active site 634503000597 primary dimer interface [polypeptide binding]; other site 634503000598 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 634503000599 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 634503000600 putative acyl-acceptor binding pocket; other site 634503000601 FtsI repressor; Provisional; Region: PRK10883 634503000602 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 634503000603 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 634503000604 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 634503000605 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 634503000606 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 634503000607 substrate binding pocket [chemical binding]; other site 634503000608 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 634503000609 B12 binding site [chemical binding]; other site 634503000610 cobalt ligand [ion binding]; other site 634503000611 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 634503000612 aspartate kinase III; Validated; Region: PRK09084 634503000613 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 634503000614 nucleotide binding site [chemical binding]; other site 634503000615 substrate binding site [chemical binding]; other site 634503000616 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 634503000617 lysine allosteric regulatory site; other site 634503000618 dimer interface [polypeptide binding]; other site 634503000619 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 634503000620 dimer interface [polypeptide binding]; other site 634503000621 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 634503000622 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 634503000623 active site 634503000624 dimer interface [polypeptide binding]; other site 634503000625 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 634503000626 dimer interface [polypeptide binding]; other site 634503000627 active site 634503000628 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 634503000629 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 634503000630 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 634503000631 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 634503000632 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 634503000633 dimer interface [polypeptide binding]; other site 634503000634 conserved gate region; other site 634503000635 putative PBP binding loops; other site 634503000636 ABC-ATPase subunit interface; other site 634503000637 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 634503000638 dimer interface [polypeptide binding]; other site 634503000639 conserved gate region; other site 634503000640 putative PBP binding loops; other site 634503000641 ABC-ATPase subunit interface; other site 634503000642 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 634503000643 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 634503000644 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 634503000645 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 634503000646 Walker A/P-loop; other site 634503000647 ATP binding site [chemical binding]; other site 634503000648 Q-loop/lid; other site 634503000649 ABC transporter signature motif; other site 634503000650 Walker B; other site 634503000651 D-loop; other site 634503000652 H-loop/switch region; other site 634503000653 TOBE domain; Region: TOBE_2; pfam08402 634503000654 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 634503000655 trimer interface; other site 634503000656 sugar binding site [chemical binding]; other site 634503000657 maltose regulon periplasmic protein; Provisional; Region: PRK10564 634503000658 Chorismate lyase; Region: Chor_lyase; cl01230 634503000659 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 634503000660 UbiA prenyltransferase family; Region: UbiA; pfam01040 634503000661 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634503000662 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 634503000663 putative substrate translocation pore; other site 634503000664 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 634503000665 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 634503000666 putative acyl-acceptor binding pocket; other site 634503000667 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 634503000668 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 634503000669 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 634503000670 transmembrane helices; other site 634503000671 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 634503000672 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; pfam03802 634503000673 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 634503000674 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 634503000675 Coenzyme A transferase; Region: CoA_trans; cl17247 634503000676 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 634503000677 citrate lyase subunit gamma; Provisional; Region: PRK13253 634503000678 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 634503000679 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634503000680 active site 634503000681 nucleotide binding site [chemical binding]; other site 634503000682 HIGH motif; other site 634503000683 KMSKS motif; other site 634503000684 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 634503000685 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 634503000686 putative active site [active] 634503000687 heme pocket [chemical binding]; other site 634503000688 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 634503000689 ATP binding site [chemical binding]; other site 634503000690 Mg2+ binding site [ion binding]; other site 634503000691 G-X-G motif; other site 634503000692 two-component response regulator DpiA; Provisional; Region: dpiA; PRK10046 634503000693 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 634503000694 active site 634503000695 phosphorylation site [posttranslational modification] 634503000696 intermolecular recognition site; other site 634503000697 dimerization interface [polypeptide binding]; other site 634503000698 Transcriptional regulator; Region: CitT; pfam12431 634503000699 LexA repressor; Validated; Region: PRK00215 634503000700 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 634503000701 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 634503000702 Catalytic site [active] 634503000703 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 634503000704 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 634503000705 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 634503000706 metal binding site 2 [ion binding]; metal-binding site 634503000707 putative DNA binding helix; other site 634503000708 metal binding site 1 [ion binding]; metal-binding site 634503000709 dimer interface [polypeptide binding]; other site 634503000710 structural Zn2+ binding site [ion binding]; other site 634503000711 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 634503000712 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 634503000713 FMN binding site [chemical binding]; other site 634503000714 active site 634503000715 catalytic residues [active] 634503000716 substrate binding site [chemical binding]; other site 634503000717 phage shock protein G; Reviewed; Region: pspG; PRK09459 634503000718 replicative DNA helicase; Provisional; Region: PRK08006 634503000719 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 634503000720 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 634503000721 Walker A motif; other site 634503000722 ATP binding site [chemical binding]; other site 634503000723 Walker B motif; other site 634503000724 DNA binding loops [nucleotide binding] 634503000725 alanine racemase; Reviewed; Region: alr; PRK00053 634503000726 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 634503000727 active site 634503000728 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 634503000729 substrate binding site [chemical binding]; other site 634503000730 catalytic residues [active] 634503000731 dimer interface [polypeptide binding]; other site 634503000732 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 634503000733 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 634503000734 dimer interface [polypeptide binding]; other site 634503000735 active site 634503000736 metal binding site [ion binding]; metal-binding site 634503000737 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 634503000738 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634503000739 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 634503000740 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634503000741 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 634503000742 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 634503000743 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 634503000744 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 634503000745 dimer interface [polypeptide binding]; other site 634503000746 putative CheW interface [polypeptide binding]; other site 634503000747 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 634503000748 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 634503000749 E-class dimer interface [polypeptide binding]; other site 634503000750 P-class dimer interface [polypeptide binding]; other site 634503000751 active site 634503000752 Cu2+ binding site [ion binding]; other site 634503000753 Zn2+ binding site [ion binding]; other site 634503000754 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 634503000755 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 634503000756 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 634503000757 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 634503000758 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 634503000759 [4Fe-4S] binding site [ion binding]; other site 634503000760 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 634503000761 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 634503000762 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 634503000763 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 634503000764 molybdopterin cofactor binding site; other site 634503000765 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 634503000766 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 634503000767 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 634503000768 Transposase; Region: HTH_Tnp_1; cl17663 634503000769 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 634503000770 dimer interface [polypeptide binding]; other site 634503000771 catalytic triad [active] 634503000772 Winged helix-turn helix; Region: HTH_29; pfam13551 634503000773 nickel responsive regulator; Provisional; Region: PRK02967 634503000774 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 634503000775 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 634503000776 murein transglycosylase C; Provisional; Region: mltC; PRK11671 634503000777 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 634503000778 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 634503000779 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634503000780 catalytic residue [active] 634503000781 oxidative damage protection protein; Provisional; Region: PRK05408 634503000782 adenine DNA glycosylase; Provisional; Region: PRK10880 634503000783 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 634503000784 minor groove reading motif; other site 634503000785 helix-hairpin-helix signature motif; other site 634503000786 substrate binding pocket [chemical binding]; other site 634503000787 active site 634503000788 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 634503000789 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 634503000790 DNA binding and oxoG recognition site [nucleotide binding] 634503000791 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 634503000792 S-adenosylmethionine binding site [chemical binding]; other site 634503000793 hypothetical protein; Provisional; Region: PRK11702 634503000794 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 634503000795 glutaminase; Provisional; Region: PRK00971 634503000796 hypothetical protein; Provisional; Region: PRK10626 634503000797 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 634503000798 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 634503000799 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 634503000800 peptide binding site [polypeptide binding]; other site 634503000801 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503000802 HemN family oxidoreductase; Provisional; Region: PRK05660 634503000803 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 634503000804 FeS/SAM binding site; other site 634503000805 HemN C-terminal domain; Region: HemN_C; pfam06969 634503000806 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 634503000807 active site 634503000808 dimerization interface [polypeptide binding]; other site 634503000809 hypothetical protein; Validated; Region: PRK05090 634503000810 YGGT family; Region: YGGT; pfam02325 634503000811 YGGT family; Region: YGGT; pfam02325 634503000812 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 634503000813 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 634503000814 catalytic residue [active] 634503000815 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 634503000816 hypothetical protein; Validated; Region: PRK00228 634503000817 glutathione synthetase; Provisional; Region: PRK05246 634503000818 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 634503000819 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 634503000820 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 634503000821 RNA methyltransferase, RsmE family; Region: TIGR00046 634503000822 DNA-specific endonuclease I; Provisional; Region: PRK15137 634503000823 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 634503000824 hypothetical protein; Provisional; Region: PRK04860 634503000825 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 634503000826 lysine/cadaverine antiporter; Provisional; Region: cadB; PRK10435 634503000827 lysine decarboxylase CadA; Provisional; Region: PRK15400 634503000828 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 634503000829 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 634503000830 homodimer interface [polypeptide binding]; other site 634503000831 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503000832 catalytic residue [active] 634503000833 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 634503000834 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 634503000835 hypothetical protein; Provisional; Region: PRK11653 634503000836 acid-resistance membrane protein; Provisional; Region: PRK10209 634503000837 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 634503000838 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 634503000839 chaperone protein TorD; Validated; Region: torD; PRK04976 634503000840 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 634503000841 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 634503000842 molybdopterin cofactor binding site [chemical binding]; other site 634503000843 substrate binding site [chemical binding]; other site 634503000844 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 634503000845 molybdopterin cofactor binding site; other site 634503000846 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional; Region: PRK15032 634503000847 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 634503000848 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 634503000849 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 634503000850 active site 634503000851 phosphorylation site [posttranslational modification] 634503000852 intermolecular recognition site; other site 634503000853 dimerization interface [polypeptide binding]; other site 634503000854 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 634503000855 DNA binding site [nucleotide binding] 634503000856 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 634503000857 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 634503000858 putative ligand binding site [chemical binding]; other site 634503000859 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 634503000860 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 634503000861 dimer interface [polypeptide binding]; other site 634503000862 phosphorylation site [posttranslational modification] 634503000863 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 634503000864 ATP binding site [chemical binding]; other site 634503000865 Mg2+ binding site [ion binding]; other site 634503000866 G-X-G motif; other site 634503000867 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 634503000868 active site 634503000869 phosphorylation site [posttranslational modification] 634503000870 intermolecular recognition site; other site 634503000871 dimerization interface [polypeptide binding]; other site 634503000872 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 634503000873 putative binding surface; other site 634503000874 active site 634503000875 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 634503000876 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634503000877 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 634503000878 TPP-binding site [chemical binding]; other site 634503000879 dimer interface [polypeptide binding]; other site 634503000880 putrescine transporter; Provisional; Region: potE; PRK10655 634503000881 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503000882 MULE transposase domain; Region: MULE; pfam10551 634503000883 arginine decarboxylase; Provisional; Region: PRK15029 634503000884 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 634503000885 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 634503000886 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634503000887 catalytic residue [active] 634503000888 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 634503000889 arginine repressor; Provisional; Region: PRK05066 634503000890 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 634503000891 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 634503000892 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 634503000893 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 634503000894 P-loop; other site 634503000895 Magnesium ion binding site [ion binding]; other site 634503000896 replicative DNA helicase; Region: DnaB; TIGR00665 634503000897 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 634503000898 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 634503000899 Walker A motif; other site 634503000900 ATP binding site [chemical binding]; other site 634503000901 Walker B motif; other site 634503000902 DNA binding loops [nucleotide binding] 634503000903 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 634503000904 ParB-like nuclease domain; Region: ParBc; pfam02195 634503000905 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 634503000906 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 634503000907 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 634503000908 DNA topoisomerase III; Provisional; Region: PRK07726 634503000909 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 634503000910 active site 634503000911 putative interdomain interaction site [polypeptide binding]; other site 634503000912 putative metal-binding site [ion binding]; other site 634503000913 putative nucleotide binding site [chemical binding]; other site 634503000914 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 634503000915 domain I; other site 634503000916 DNA binding groove [nucleotide binding] 634503000917 phosphate binding site [ion binding]; other site 634503000918 domain II; other site 634503000919 domain III; other site 634503000920 nucleotide binding site [chemical binding]; other site 634503000921 catalytic site [active] 634503000922 domain IV; other site 634503000923 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 634503000924 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 634503000925 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 634503000926 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 634503000927 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 634503000928 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 634503000929 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634503000930 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 634503000931 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 634503000932 AAA-like domain; Region: AAA_10; pfam12846 634503000933 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 634503000934 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 634503000935 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 634503000936 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 634503000937 conjugative transfer region protein, TIGR03750 family; Region: conj_TIGR03750 634503000938 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 634503000939 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 634503000940 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 634503000941 Kinesin motor; Region: Kinesin-relat_1; pfam12711 634503000942 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 634503000943 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 634503000944 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 634503000945 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503000946 MULE transposase domain; Region: MULE; pfam10551 634503000947 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503000948 Protein of unknown function (DUF433); Region: DUF433; cl01030 634503000949 MULE transposase domain; Region: MULE; pfam10551 634503000950 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 634503000951 Divergent AAA domain; Region: AAA_4; pfam04326 634503000952 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 634503000953 integrating conjugative element protein, PFL_4709 family; Region: conj_TIGR03757 634503000954 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 634503000955 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 634503000956 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 634503000957 Flagellin N-methylase; Region: FliB; cl00497 634503000958 Integrase; Region: Integrase_1; pfam12835 634503000959 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 634503000960 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 634503000961 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 634503000962 Protein of unknown function (DUF1281); Region: DUF1281; pfam06924 634503000963 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 634503000964 Nuclease-related domain; Region: NERD; pfam08378 634503000965 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 634503000966 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 634503000967 substrate binding site [chemical binding]; other site 634503000968 activation loop (A-loop); other site 634503000969 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 634503000970 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 634503000971 ATP binding site [chemical binding]; other site 634503000972 AAA domain; Region: AAA_11; pfam13086 634503000973 Part of AAA domain; Region: AAA_19; pfam13245 634503000974 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 634503000975 AAA domain; Region: AAA_12; pfam13087 634503000976 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 634503000977 Family description; Region: UvrD_C_2; pfam13538 634503000978 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 634503000979 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 634503000980 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 634503000981 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 634503000982 active site 634503000983 catalytic residues [active] 634503000984 DNA binding site [nucleotide binding] 634503000985 Int/Topo IB signature motif; other site 634503000986 hypothetical protein; Provisional; Region: PRK10316 634503000987 YfdX protein; Region: YfdX; pfam10938 634503000988 putative transcriptional regulator; Provisional; Region: PRK11640 634503000989 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 634503000990 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 634503000991 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 634503000992 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 634503000993 DsbD alpha interface [polypeptide binding]; other site 634503000994 catalytic residues [active] 634503000995 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 634503000996 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 634503000997 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 634503000998 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 634503000999 Aspartase; Region: Aspartase; cd01357 634503001000 active sites [active] 634503001001 tetramer interface [polypeptide binding]; other site 634503001002 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 634503001003 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 634503001004 oligomerisation interface [polypeptide binding]; other site 634503001005 mobile loop; other site 634503001006 roof hairpin; other site 634503001007 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 634503001008 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 634503001009 ring oligomerisation interface [polypeptide binding]; other site 634503001010 ATP/Mg binding site [chemical binding]; other site 634503001011 stacking interactions; other site 634503001012 hinge regions; other site 634503001013 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 634503001014 Uncharacterized conserved protein [Function unknown]; Region: COG1556 634503001015 iron-sulfur cluster-binding protein; Region: TIGR00273 634503001016 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 634503001017 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 634503001018 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 634503001019 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 634503001020 Cysteine-rich domain; Region: CCG; pfam02754 634503001021 Cysteine-rich domain; Region: CCG; pfam02754 634503001022 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 634503001023 L-lactate permease; Region: Lactate_perm; cl00701 634503001024 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 634503001025 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 634503001026 FeS/SAM binding site; other site 634503001027 elongation factor P; Validated; Region: PRK00529 634503001028 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 634503001029 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 634503001030 RNA binding site [nucleotide binding]; other site 634503001031 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 634503001032 RNA binding site [nucleotide binding]; other site 634503001033 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 634503001034 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 634503001035 Iron-sulfur protein interface; other site 634503001036 proximal quinone binding site [chemical binding]; other site 634503001037 C-subunit interface; other site 634503001038 distal quinone binding site; other site 634503001039 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 634503001040 D-subunit interface [polypeptide binding]; other site 634503001041 Iron-sulfur protein interface; other site 634503001042 proximal quinone binding site [chemical binding]; other site 634503001043 distal quinone binding site [chemical binding]; other site 634503001044 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 634503001045 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 634503001046 catalytic loop [active] 634503001047 iron binding site [ion binding]; other site 634503001048 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 634503001049 L-aspartate oxidase; Provisional; Region: PRK06175 634503001050 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 634503001051 poxB regulator PoxA; Provisional; Region: PRK09350 634503001052 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 634503001053 motif 1; other site 634503001054 dimer interface [polypeptide binding]; other site 634503001055 active site 634503001056 motif 2; other site 634503001057 motif 3; other site 634503001058 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 634503001059 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 634503001060 GTPase RsgA; Reviewed; Region: PRK12288 634503001061 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 634503001062 RNA binding site [nucleotide binding]; other site 634503001063 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 634503001064 GTPase/Zn-binding domain interface [polypeptide binding]; other site 634503001065 GTP/Mg2+ binding site [chemical binding]; other site 634503001066 G4 box; other site 634503001067 G5 box; other site 634503001068 G1 box; other site 634503001069 Switch I region; other site 634503001070 G2 box; other site 634503001071 G3 box; other site 634503001072 Switch II region; other site 634503001073 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 634503001074 catalytic site [active] 634503001075 putative active site [active] 634503001076 putative substrate binding site [chemical binding]; other site 634503001077 dimer interface [polypeptide binding]; other site 634503001078 epoxyqueuosine reductase; Region: TIGR00276 634503001079 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 634503001080 putative carbohydrate kinase; Provisional; Region: PRK10565 634503001081 Uncharacterized conserved protein [Function unknown]; Region: COG0062 634503001082 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 634503001083 putative substrate binding site [chemical binding]; other site 634503001084 putative ATP binding site [chemical binding]; other site 634503001085 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 634503001086 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 634503001087 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 634503001088 active site 634503001089 metal binding site [ion binding]; metal-binding site 634503001090 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 634503001091 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 634503001092 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 634503001093 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 634503001094 ATP binding site [chemical binding]; other site 634503001095 Mg2+ binding site [ion binding]; other site 634503001096 G-X-G motif; other site 634503001097 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 634503001098 ATP binding site [chemical binding]; other site 634503001099 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 634503001100 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 634503001101 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 634503001102 bacterial Hfq-like; Region: Hfq; cd01716 634503001103 hexamer interface [polypeptide binding]; other site 634503001104 Sm1 motif; other site 634503001105 RNA binding site [nucleotide binding]; other site 634503001106 Sm2 motif; other site 634503001107 GTPase HflX; Provisional; Region: PRK11058 634503001108 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 634503001109 HflX GTPase family; Region: HflX; cd01878 634503001110 G1 box; other site 634503001111 GTP/Mg2+ binding site [chemical binding]; other site 634503001112 Switch I region; other site 634503001113 G2 box; other site 634503001114 G3 box; other site 634503001115 Switch II region; other site 634503001116 G4 box; other site 634503001117 G5 box; other site 634503001118 FtsH protease regulator HflK; Provisional; Region: PRK10930 634503001119 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 634503001120 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 634503001121 FtsH protease regulator HflC; Provisional; Region: PRK11029 634503001122 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 634503001123 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 634503001124 Acyltransferase family; Region: Acyl_transf_3; pfam01757 634503001125 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 634503001126 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 634503001127 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 634503001128 GDP-binding site [chemical binding]; other site 634503001129 ACT binding site; other site 634503001130 IMP binding site; other site 634503001131 transcriptional repressor NsrR; Provisional; Region: PRK11014 634503001132 Rrf2 family protein; Region: rrf2_super; TIGR00738 634503001133 exoribonuclease R; Provisional; Region: PRK11642 634503001134 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 634503001135 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 634503001136 RNB domain; Region: RNB; pfam00773 634503001137 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 634503001138 RNA binding site [nucleotide binding]; other site 634503001139 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 634503001140 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 634503001141 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 634503001142 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 634503001143 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 634503001144 esterase; Provisional; Region: PRK10566 634503001145 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 634503001146 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 634503001147 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 634503001148 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 634503001149 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 634503001150 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 634503001151 Protein of unknown function, DUF488; Region: DUF488; cl01246 634503001152 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 634503001153 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 634503001154 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 634503001155 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 634503001156 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 634503001157 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 634503001158 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 634503001159 Hemerythrin-like domain; Region: Hr-like; cd12108 634503001160 Fe binding site [ion binding]; other site 634503001161 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 634503001162 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 634503001163 active site 634503001164 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 634503001165 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 634503001166 Domain of unknown function DUF21; Region: DUF21; pfam01595 634503001167 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 634503001168 Transporter associated domain; Region: CorC_HlyC; smart01091 634503001169 methionine sulfoxide reductase A; Provisional; Region: PRK00058 634503001170 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 634503001171 Surface antigen; Region: Bac_surface_Ag; pfam01103 634503001172 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 634503001173 Family of unknown function (DUF490); Region: DUF490; pfam04357 634503001174 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 634503001175 dimerization interface [polypeptide binding]; other site 634503001176 putative active site pocket [active] 634503001177 putative catalytic residue [active] 634503001178 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 634503001179 dimer interface [polypeptide binding]; other site 634503001180 substrate binding site [chemical binding]; other site 634503001181 metal binding sites [ion binding]; metal-binding site 634503001182 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 634503001183 AMP binding site [chemical binding]; other site 634503001184 metal binding site [ion binding]; metal-binding site 634503001185 active site 634503001186 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 634503001187 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 634503001188 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634503001189 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 634503001190 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 634503001191 arginine repressor; Provisional; Region: PRK05066 634503001192 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 634503001193 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 634503001194 malate dehydrogenase; Provisional; Region: PRK05086 634503001195 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 634503001196 NAD binding site [chemical binding]; other site 634503001197 dimerization interface [polypeptide binding]; other site 634503001198 Substrate binding site [chemical binding]; other site 634503001199 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 634503001200 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 634503001201 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 634503001202 substrate binding pocket [chemical binding]; other site 634503001203 chain length determination region; other site 634503001204 substrate-Mg2+ binding site; other site 634503001205 catalytic residues [active] 634503001206 aspartate-rich region 1; other site 634503001207 active site lid residues [active] 634503001208 aspartate-rich region 2; other site 634503001209 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 634503001210 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 634503001211 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 634503001212 EamA-like transporter family; Region: EamA; pfam00892 634503001213 EamA-like transporter family; Region: EamA; pfam00892 634503001214 GTPase CgtA; Reviewed; Region: obgE; PRK12298 634503001215 GTP1/OBG; Region: GTP1_OBG; pfam01018 634503001216 Obg GTPase; Region: Obg; cd01898 634503001217 G1 box; other site 634503001218 GTP/Mg2+ binding site [chemical binding]; other site 634503001219 Switch I region; other site 634503001220 G2 box; other site 634503001221 G3 box; other site 634503001222 Switch II region; other site 634503001223 G4 box; other site 634503001224 G5 box; other site 634503001225 sensor protein BasS/PmrB; Provisional; Region: PRK10755 634503001226 HAMP domain; Region: HAMP; pfam00672 634503001227 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 634503001228 dimer interface [polypeptide binding]; other site 634503001229 phosphorylation site [posttranslational modification] 634503001230 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 634503001231 ATP binding site [chemical binding]; other site 634503001232 Mg2+ binding site [ion binding]; other site 634503001233 G-X-G motif; other site 634503001234 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 634503001235 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 634503001236 active site 634503001237 phosphorylation site [posttranslational modification] 634503001238 intermolecular recognition site; other site 634503001239 dimerization interface [polypeptide binding]; other site 634503001240 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 634503001241 DNA binding site [nucleotide binding] 634503001242 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 634503001243 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 634503001244 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 634503001245 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 634503001246 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 634503001247 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 634503001248 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 634503001249 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 634503001250 S-adenosylmethionine binding site [chemical binding]; other site 634503001251 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 634503001252 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 634503001253 Walker A motif; other site 634503001254 ATP binding site [chemical binding]; other site 634503001255 Walker B motif; other site 634503001256 arginine finger; other site 634503001257 Peptidase family M41; Region: Peptidase_M41; pfam01434 634503001258 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 634503001259 dihydropteroate synthase; Region: DHPS; TIGR01496 634503001260 substrate binding pocket [chemical binding]; other site 634503001261 dimer interface [polypeptide binding]; other site 634503001262 inhibitor binding site; inhibition site 634503001263 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 634503001264 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 634503001265 active site 634503001266 substrate binding site [chemical binding]; other site 634503001267 metal binding site [ion binding]; metal-binding site 634503001268 Preprotein translocase SecG subunit; Region: SecG; pfam03840 634503001269 ribosome maturation protein RimP; Reviewed; Region: PRK00092 634503001270 hypothetical protein; Provisional; Region: PRK14641 634503001271 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 634503001272 putative oligomer interface [polypeptide binding]; other site 634503001273 putative RNA binding site [nucleotide binding]; other site 634503001274 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 634503001275 NusA N-terminal domain; Region: NusA_N; pfam08529 634503001276 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 634503001277 RNA binding site [nucleotide binding]; other site 634503001278 homodimer interface [polypeptide binding]; other site 634503001279 NusA-like KH domain; Region: KH_5; pfam13184 634503001280 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 634503001281 G-X-X-G motif; other site 634503001282 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 634503001283 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 634503001284 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 634503001285 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 634503001286 translation initiation factor IF-2; Validated; Region: infB; PRK05306 634503001287 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 634503001288 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 634503001289 G1 box; other site 634503001290 putative GEF interaction site [polypeptide binding]; other site 634503001291 GTP/Mg2+ binding site [chemical binding]; other site 634503001292 Switch I region; other site 634503001293 G2 box; other site 634503001294 G3 box; other site 634503001295 Switch II region; other site 634503001296 G4 box; other site 634503001297 G5 box; other site 634503001298 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 634503001299 Translation-initiation factor 2; Region: IF-2; pfam11987 634503001300 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 634503001301 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 634503001302 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 634503001303 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 634503001304 RNA binding site [nucleotide binding]; other site 634503001305 active site 634503001306 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 634503001307 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 634503001308 16S/18S rRNA binding site [nucleotide binding]; other site 634503001309 S13e-L30e interaction site [polypeptide binding]; other site 634503001310 25S rRNA binding site [nucleotide binding]; other site 634503001311 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 634503001312 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 634503001313 RNase E interface [polypeptide binding]; other site 634503001314 trimer interface [polypeptide binding]; other site 634503001315 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 634503001316 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 634503001317 RNase E interface [polypeptide binding]; other site 634503001318 trimer interface [polypeptide binding]; other site 634503001319 active site 634503001320 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 634503001321 putative nucleic acid binding region [nucleotide binding]; other site 634503001322 G-X-X-G motif; other site 634503001323 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 634503001324 RNA binding site [nucleotide binding]; other site 634503001325 domain interface; other site 634503001326 lipoprotein NlpI; Provisional; Region: PRK11189 634503001327 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 634503001328 binding surface 634503001329 TPR motif; other site 634503001330 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 634503001331 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 634503001332 ATP binding site [chemical binding]; other site 634503001333 Mg++ binding site [ion binding]; other site 634503001334 motif III; other site 634503001335 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 634503001336 nucleotide binding region [chemical binding]; other site 634503001337 ATP-binding site [chemical binding]; other site 634503001338 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 634503001339 putative RNA binding site [nucleotide binding]; other site 634503001340 serine transporter; Region: stp; TIGR00814 634503001341 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 634503001342 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 634503001343 putative protease; Provisional; Region: PRK15447 634503001344 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 634503001345 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 634503001346 Peptidase family U32; Region: Peptidase_U32; pfam01136 634503001347 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 634503001348 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 634503001349 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634503001350 Coenzyme A binding pocket [chemical binding]; other site 634503001351 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 634503001352 Na binding site [ion binding]; other site 634503001353 hypothetical protein; Provisional; Region: PRK03467 634503001354 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 634503001355 NADH(P)-binding; Region: NAD_binding_10; pfam13460 634503001356 NAD binding site [chemical binding]; other site 634503001357 active site 634503001358 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; PRK11121 634503001359 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 634503001360 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 634503001361 ATP cone domain; Region: ATP-cone; pfam03477 634503001362 Class III ribonucleotide reductase; Region: RNR_III; cd01675 634503001363 effector binding site; other site 634503001364 active site 634503001365 Zn binding site [ion binding]; other site 634503001366 glycine loop; other site 634503001367 YqjK-like protein; Region: YqjK; pfam13997 634503001368 Predicted membrane protein [Function unknown]; Region: COG5393 634503001369 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 634503001370 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 634503001371 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 634503001372 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 634503001373 CrcB-like protein; Region: CRCB; cl09114 634503001374 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 634503001375 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634503001376 DNA-binding site [nucleotide binding]; DNA binding site 634503001377 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 634503001378 D-galactonate transporter; Region: 2A0114; TIGR00893 634503001379 D-galactonate transporter; Region: 2A0114; TIGR00893 634503001380 D-galactonate transporter; Region: 2A0114; TIGR00893 634503001381 Glucuronate isomerase; Region: UxaC; pfam02614 634503001382 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 634503001383 altronate oxidoreductase; Provisional; Region: PRK03643 634503001384 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 634503001385 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 634503001386 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 634503001387 galactarate dehydratase; Region: galactar-dH20; TIGR03248 634503001388 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 634503001389 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 634503001390 serine/threonine transporter SstT; Provisional; Region: PRK13628 634503001391 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 634503001392 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 634503001393 EamA-like transporter family; Region: EamA; pfam00892 634503001394 EamA-like transporter family; Region: EamA; pfam00892 634503001395 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 634503001396 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 634503001397 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 634503001398 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 634503001399 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 634503001400 S-adenosylmethionine binding site [chemical binding]; other site 634503001401 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 634503001402 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 634503001403 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503001404 homodimer interface [polypeptide binding]; other site 634503001405 catalytic residue [active] 634503001406 sensor protein QseC; Provisional; Region: PRK10337 634503001407 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 634503001408 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 634503001409 dimer interface [polypeptide binding]; other site 634503001410 phosphorylation site [posttranslational modification] 634503001411 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 634503001412 ATP binding site [chemical binding]; other site 634503001413 Mg2+ binding site [ion binding]; other site 634503001414 G-X-G motif; other site 634503001415 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 634503001416 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 634503001417 active site 634503001418 phosphorylation site [posttranslational modification] 634503001419 intermolecular recognition site; other site 634503001420 dimerization interface [polypeptide binding]; other site 634503001421 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 634503001422 DNA binding site [nucleotide binding] 634503001423 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 634503001424 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 634503001425 HsdM N-terminal domain; Region: HsdM_N; pfam12161 634503001426 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 634503001427 Methyltransferase domain; Region: Methyltransf_26; pfam13659 634503001428 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634503001429 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634503001430 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634503001431 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 634503001432 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 634503001433 DEAD-like helicases superfamily; Region: DEXDc; smart00487 634503001434 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 634503001435 ATP binding site [chemical binding]; other site 634503001436 putative Mg++ binding site [ion binding]; other site 634503001437 ligand binding site [chemical binding]; other site 634503001438 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 634503001439 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 634503001440 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 634503001441 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 634503001442 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 634503001443 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634503001444 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 634503001445 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 634503001446 DNA binding residues [nucleotide binding] 634503001447 DNA primase; Validated; Region: dnaG; PRK05667 634503001448 CHC2 zinc finger; Region: zf-CHC2; pfam01807 634503001449 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 634503001450 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 634503001451 active site 634503001452 metal binding site [ion binding]; metal-binding site 634503001453 interdomain interaction site; other site 634503001454 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 634503001455 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 634503001456 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 634503001457 UGMP family protein; Validated; Region: PRK09604 634503001458 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 634503001459 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 634503001460 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 634503001461 homooctamer interface [polypeptide binding]; other site 634503001462 active site 634503001463 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 634503001464 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 634503001465 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 634503001466 active site 634503001467 NTP binding site [chemical binding]; other site 634503001468 metal binding triad [ion binding]; metal-binding site 634503001469 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 634503001470 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 634503001471 Zn2+ binding site [ion binding]; other site 634503001472 Mg2+ binding site [ion binding]; other site 634503001473 SH3 domain-containing protein; Provisional; Region: PRK10884 634503001474 Bacterial SH3 domain homologues; Region: SH3b; smart00287 634503001475 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 634503001476 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 634503001477 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 634503001478 Uncharacterized conserved protein [Function unknown]; Region: COG3025 634503001479 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 634503001480 putative active site [active] 634503001481 putative metal binding residues [ion binding]; other site 634503001482 signature motif; other site 634503001483 putative triphosphate binding site [ion binding]; other site 634503001484 CHAD domain; Region: CHAD; cl10506 634503001485 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 634503001486 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 634503001487 metal binding triad; other site 634503001488 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 634503001489 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 634503001490 metal binding triad; other site 634503001491 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 634503001492 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 634503001493 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 634503001494 putative acyl-acceptor binding pocket; other site 634503001495 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 634503001496 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 634503001497 putative ribose interaction site [chemical binding]; other site 634503001498 putative ADP binding site [chemical binding]; other site 634503001499 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 634503001500 active site 634503001501 nucleotide binding site [chemical binding]; other site 634503001502 HIGH motif; other site 634503001503 KMSKS motif; other site 634503001504 putative transporter; Provisional; Region: PRK11021 634503001505 putative transporter; Provisional; Region: PRK11021 634503001506 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 634503001507 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 634503001508 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 634503001509 Probable transposase; Region: OrfB_IS605; pfam01385 634503001510 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 634503001511 Transposase IS200 like; Region: Y1_Tnp; pfam01797 634503001512 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 634503001513 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 634503001514 zinc transporter ZupT; Provisional; Region: PRK04201 634503001515 ZIP Zinc transporter; Region: Zip; pfam02535 634503001516 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 634503001517 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 634503001518 putative active site [active] 634503001519 metal binding site [ion binding]; metal-binding site 634503001520 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 634503001521 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 634503001522 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 634503001523 S-adenosylmethionine binding site [chemical binding]; other site 634503001524 DNA polymerase III subunit psi; Validated; Region: PRK06856 634503001525 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 634503001526 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 634503001527 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 634503001528 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 634503001529 G1 box; other site 634503001530 putative GEF interaction site [polypeptide binding]; other site 634503001531 GTP/Mg2+ binding site [chemical binding]; other site 634503001532 Switch I region; other site 634503001533 G2 box; other site 634503001534 G3 box; other site 634503001535 Switch II region; other site 634503001536 G4 box; other site 634503001537 G5 box; other site 634503001538 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 634503001539 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 634503001540 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 634503001541 active site 634503001542 nucleophile elbow; other site 634503001543 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 634503001544 active site 634503001545 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 634503001546 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 634503001547 Nucleoside recognition; Region: Gate; pfam07670 634503001548 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 634503001549 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 634503001550 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 634503001551 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 634503001552 hypothetical protein; Provisional; Region: PRK10977 634503001553 hypothetical protein; Provisional; Region: PRK10977 634503001554 Pyruvate formate lyase; Region: PFL; pfam02901 634503001555 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 634503001556 intersubunit interface [polypeptide binding]; other site 634503001557 active site 634503001558 catalytic residue [active] 634503001559 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 634503001560 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 634503001561 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 634503001562 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 634503001563 phosphopentomutase; Provisional; Region: PRK05362 634503001564 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 634503001565 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 634503001566 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 634503001567 Cytochrome b562; Region: Cytochrom_B562; cl01546 634503001568 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 634503001569 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 634503001570 dimerization domain swap beta strand [polypeptide binding]; other site 634503001571 regulatory protein interface [polypeptide binding]; other site 634503001572 active site 634503001573 regulatory phosphorylation site [posttranslational modification]; other site 634503001574 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 634503001575 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 634503001576 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 634503001577 active site 634503001578 phosphorylation site [posttranslational modification] 634503001579 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 634503001580 30S subunit binding site; other site 634503001581 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 634503001582 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 634503001583 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 634503001584 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 634503001585 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 634503001586 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 634503001587 Walker A/P-loop; other site 634503001588 ATP binding site [chemical binding]; other site 634503001589 Q-loop/lid; other site 634503001590 ABC transporter signature motif; other site 634503001591 Walker B; other site 634503001592 D-loop; other site 634503001593 H-loop/switch region; other site 634503001594 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 634503001595 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 634503001596 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 634503001597 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 634503001598 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 634503001599 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 634503001600 active site 634503001601 motif I; other site 634503001602 motif II; other site 634503001603 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 634503001604 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 634503001605 putative active site [active] 634503001606 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 634503001607 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 634503001608 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 634503001609 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 634503001610 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 634503001611 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 634503001612 Walker A/P-loop; other site 634503001613 ATP binding site [chemical binding]; other site 634503001614 Q-loop/lid; other site 634503001615 ABC transporter signature motif; other site 634503001616 Walker B; other site 634503001617 D-loop; other site 634503001618 H-loop/switch region; other site 634503001619 conserved hypothetical integral membrane protein; Region: TIGR00056 634503001620 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 634503001621 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 634503001622 mce related protein; Region: MCE; pfam02470 634503001623 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 634503001624 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 634503001625 anti sigma factor interaction site; other site 634503001626 regulatory phosphorylation site [posttranslational modification]; other site 634503001627 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 634503001628 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 634503001629 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 634503001630 hinge; other site 634503001631 active site 634503001632 serine endoprotease; Provisional; Region: PRK10898 634503001633 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 634503001634 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 634503001635 protein binding site [polypeptide binding]; other site 634503001636 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 634503001637 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 634503001638 protein binding site [polypeptide binding]; other site 634503001639 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 634503001640 hypothetical protein; Provisional; Region: PRK11677 634503001641 Predicted ATPase [General function prediction only]; Region: COG1485 634503001642 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 634503001643 23S rRNA interface [nucleotide binding]; other site 634503001644 L3 interface [polypeptide binding]; other site 634503001645 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 634503001646 stringent starvation protein A; Provisional; Region: sspA; PRK09481 634503001647 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 634503001648 C-terminal domain interface [polypeptide binding]; other site 634503001649 putative GSH binding site (G-site) [chemical binding]; other site 634503001650 dimer interface [polypeptide binding]; other site 634503001651 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 634503001652 dimer interface [polypeptide binding]; other site 634503001653 N-terminal domain interface [polypeptide binding]; other site 634503001654 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 634503001655 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 634503001656 N-acetylmannosamine kinase; Provisional; Region: PRK05082 634503001657 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 634503001658 nucleotide binding site [chemical binding]; other site 634503001659 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 634503001660 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 634503001661 putative active site cavity [active] 634503001662 putative disulfide oxidoreductase; Provisional; Region: PRK04307 634503001663 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 634503001664 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 634503001665 catalytic residues [active] 634503001666 hinge region; other site 634503001667 alpha helical domain; other site 634503001668 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 634503001669 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634503001670 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503001671 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 634503001672 substrate binding pocket [chemical binding]; other site 634503001673 dimerization interface [polypeptide binding]; other site 634503001674 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 634503001675 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 634503001676 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 634503001677 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634503001678 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 634503001679 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 634503001680 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 634503001681 active site 634503001682 dimer interface [polypeptide binding]; other site 634503001683 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 634503001684 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 634503001685 active site 634503001686 FMN binding site [chemical binding]; other site 634503001687 substrate binding site [chemical binding]; other site 634503001688 3Fe-4S cluster binding site [ion binding]; other site 634503001689 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 634503001690 domain interface; other site 634503001691 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 634503001692 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 634503001693 FeS/SAM binding site; other site 634503001694 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 634503001695 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 634503001696 putative active site [active] 634503001697 heme pocket [chemical binding]; other site 634503001698 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 634503001699 dimer interface [polypeptide binding]; other site 634503001700 phosphorylation site [posttranslational modification] 634503001701 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 634503001702 ATP binding site [chemical binding]; other site 634503001703 Mg2+ binding site [ion binding]; other site 634503001704 G-X-G motif; other site 634503001705 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 634503001706 active site 634503001707 phosphorylation site [posttranslational modification] 634503001708 intermolecular recognition site; other site 634503001709 dimerization interface [polypeptide binding]; other site 634503001710 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 634503001711 putative binding surface; other site 634503001712 active site 634503001713 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 634503001714 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 634503001715 conserved cys residue [active] 634503001716 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 634503001717 Transglycosylase; Region: Transgly; cl17702 634503001718 outer membrane lipoprotein; Provisional; Region: PRK11023 634503001719 BON domain; Region: BON; pfam04972 634503001720 BON domain; Region: BON; pfam04972 634503001721 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 634503001722 dimer interface [polypeptide binding]; other site 634503001723 active site 634503001724 hypothetical protein; Reviewed; Region: PRK12497 634503001725 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 634503001726 putative ligand binding site [chemical binding]; other site 634503001727 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 634503001728 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 634503001729 putative SAM binding site [chemical binding]; other site 634503001730 putative homodimer interface [polypeptide binding]; other site 634503001731 hypothetical protein; Provisional; Region: PRK11246 634503001732 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 634503001733 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 634503001734 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 634503001735 motif II; other site 634503001736 DNA repair protein RadA; Provisional; Region: PRK11823 634503001737 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 634503001738 Walker A motif/ATP binding site; other site 634503001739 ATP binding site [chemical binding]; other site 634503001740 Walker B motif; other site 634503001741 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 634503001742 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 634503001743 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634503001744 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634503001745 ABC transporter; Region: ABC_tran_2; pfam12848 634503001746 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634503001747 lytic murein transglycosylase; Provisional; Region: PRK11619 634503001748 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 634503001749 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634503001750 catalytic residue [active] 634503001751 Trp operon repressor; Provisional; Region: PRK01381 634503001752 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 634503001753 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 634503001754 catalytic core [active] 634503001755 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 634503001756 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634503001757 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 634503001758 hypothetical protein; Provisional; Region: PRK10756 634503001759 CreA protein; Region: CreA; pfam05981 634503001760 prolyl-tRNA synthetase; Provisional; Region: PRK09194 634503001761 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 634503001762 dimer interface [polypeptide binding]; other site 634503001763 motif 1; other site 634503001764 active site 634503001765 motif 2; other site 634503001766 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 634503001767 putative deacylase active site [active] 634503001768 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 634503001769 active site 634503001770 motif 3; other site 634503001771 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 634503001772 anticodon binding site; other site 634503001773 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 634503001774 homodimer interaction site [polypeptide binding]; other site 634503001775 cofactor binding site; other site 634503001776 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 634503001777 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 634503001778 lipoprotein, YaeC family; Region: TIGR00363 634503001779 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 634503001780 dimer interface [polypeptide binding]; other site 634503001781 conserved gate region; other site 634503001782 ABC-ATPase subunit interface; other site 634503001783 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 634503001784 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 634503001785 Walker A/P-loop; other site 634503001786 ATP binding site [chemical binding]; other site 634503001787 Q-loop/lid; other site 634503001788 ABC transporter signature motif; other site 634503001789 Walker B; other site 634503001790 D-loop; other site 634503001791 H-loop/switch region; other site 634503001792 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 634503001793 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 634503001794 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 634503001795 active site 634503001796 motif I; other site 634503001797 motif II; other site 634503001798 Helix-turn-helix domain; Region: HTH_28; pfam13518 634503001799 Winged helix-turn helix; Region: HTH_29; pfam13551 634503001800 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503001801 MULE transposase domain; Region: MULE; pfam10551 634503001802 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 634503001803 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 634503001804 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 634503001805 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 634503001806 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 634503001807 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 634503001808 Mechanosensitive ion channel; Region: MS_channel; pfam00924 634503001809 Protein of unknown function (DUF3256); Region: DUF3256; pfam11644 634503001810 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 634503001811 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 634503001812 domain interface [polypeptide binding]; other site 634503001813 putative active site [active] 634503001814 catalytic site [active] 634503001815 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 634503001816 domain interface [polypeptide binding]; other site 634503001817 putative active site [active] 634503001818 catalytic site [active] 634503001819 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 634503001820 CoA binding domain; Region: CoA_binding_2; pfam13380 634503001821 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 634503001822 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 634503001823 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 634503001824 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634503001825 Coenzyme A binding pocket [chemical binding]; other site 634503001826 Uncharacterized conserved protein [Function unknown]; Region: COG3148 634503001827 thioredoxin 2; Provisional; Region: PRK10996 634503001828 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 634503001829 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 634503001830 catalytic residues [active] 634503001831 putative methyltransferase; Provisional; Region: PRK10864 634503001832 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 634503001833 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 634503001834 putative transposase OrfB; Reviewed; Region: PHA02517 634503001835 Integrase core domain; Region: rve; pfam00665 634503001836 Integrase core domain; Region: rve_3; pfam13683 634503001837 two-component response regulator; Provisional; Region: PRK11173 634503001838 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 634503001839 active site 634503001840 phosphorylation site [posttranslational modification] 634503001841 intermolecular recognition site; other site 634503001842 dimerization interface [polypeptide binding]; other site 634503001843 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 634503001844 DNA binding site [nucleotide binding] 634503001845 putative RNA methyltransferase; Provisional; Region: PRK10433 634503001846 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050 634503001847 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 634503001848 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 634503001849 putative catalytic residues [active] 634503001850 putative nucleotide binding site [chemical binding]; other site 634503001851 putative aspartate binding site [chemical binding]; other site 634503001852 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 634503001853 dimer interface [polypeptide binding]; other site 634503001854 putative threonine allosteric regulatory site; other site 634503001855 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 634503001856 putative threonine allosteric regulatory site; other site 634503001857 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 634503001858 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 634503001859 homoserine kinase; Provisional; Region: PRK01212 634503001860 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 634503001861 threonine synthase; Validated; Region: PRK09225 634503001862 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 634503001863 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634503001864 catalytic residue [active] 634503001865 hypothetical protein; Validated; Region: PRK02101 634503001866 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 634503001867 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 634503001868 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 634503001869 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 634503001870 transaldolase-like protein; Provisional; Region: PTZ00411 634503001871 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 634503001872 active site 634503001873 dimer interface [polypeptide binding]; other site 634503001874 catalytic residue [active] 634503001875 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 634503001876 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 634503001877 tetramerization interface [polypeptide binding]; other site 634503001878 NAD(P) binding site [chemical binding]; other site 634503001879 catalytic residues [active] 634503001880 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 634503001881 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 634503001882 active site 634503001883 motif I; other site 634503001884 motif II; other site 634503001885 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 634503001886 MPT binding site; other site 634503001887 trimer interface [polypeptide binding]; other site 634503001888 metabolite-proton symporter; Region: 2A0106; TIGR00883 634503001889 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 634503001890 putative substrate translocation pore; other site 634503001891 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 634503001892 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 634503001893 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 634503001894 nucleotide binding site [chemical binding]; other site 634503001895 chaperone protein DnaJ; Provisional; Region: PRK10767 634503001896 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 634503001897 HSP70 interaction site [polypeptide binding]; other site 634503001898 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 634503001899 substrate binding site [polypeptide binding]; other site 634503001900 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 634503001901 Zn binding sites [ion binding]; other site 634503001902 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 634503001903 dimer interface [polypeptide binding]; other site 634503001904 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 634503001905 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 634503001906 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503001907 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 634503001908 putative dimerization interface [polypeptide binding]; other site 634503001909 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 634503001910 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 634503001911 active site 634503001912 Riboflavin kinase; Region: Flavokinase; smart00904 634503001913 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 634503001914 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634503001915 active site 634503001916 HIGH motif; other site 634503001917 nucleotide binding site [chemical binding]; other site 634503001918 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 634503001919 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 634503001920 active site 634503001921 KMSKS motif; other site 634503001922 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 634503001923 tRNA binding surface [nucleotide binding]; other site 634503001924 anticodon binding site; other site 634503001925 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 634503001926 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 634503001927 lipoprotein signal peptidase; Provisional; Region: PRK14787 634503001928 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 634503001929 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 634503001930 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 634503001931 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 634503001932 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 634503001933 substrate binding site [chemical binding]; other site 634503001934 xanthine dehydrogenase subunit XdhC; Provisional; Region: PRK09908 634503001935 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 634503001936 catalytic loop [active] 634503001937 iron binding site [ion binding]; other site 634503001938 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 634503001939 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 634503001940 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 634503001941 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 634503001942 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 634503001943 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634503001944 dihydrodipicolinate reductase; Provisional; Region: PRK00048 634503001945 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 634503001946 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 634503001947 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 634503001948 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 634503001949 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 634503001950 catalytic site [active] 634503001951 subunit interface [polypeptide binding]; other site 634503001952 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 634503001953 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 634503001954 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 634503001955 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 634503001956 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 634503001957 ATP-grasp domain; Region: ATP-grasp_4; cl17255 634503001958 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 634503001959 IMP binding site; other site 634503001960 dimer interface [polypeptide binding]; other site 634503001961 interdomain contacts; other site 634503001962 partial ornithine binding site; other site 634503001963 Uncharacterized conserved protein [Function unknown]; Region: COG2966 634503001964 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 634503001965 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 634503001966 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 634503001967 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 634503001968 folate binding site [chemical binding]; other site 634503001969 NADP+ binding site [chemical binding]; other site 634503001970 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 634503001971 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 634503001972 active site 634503001973 metal binding site [ion binding]; metal-binding site 634503001974 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 634503001975 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 634503001976 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 634503001977 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 634503001978 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 634503001979 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 634503001980 SurA N-terminal domain; Region: SurA_N; pfam09312 634503001981 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 634503001982 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 634503001983 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 634503001984 OstA-like protein; Region: OstA; pfam03968 634503001985 Organic solvent tolerance protein; Region: OstA_C; pfam04453 634503001986 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 634503001987 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 634503001988 putative metal binding site [ion binding]; other site 634503001989 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 634503001990 HSP70 interaction site [polypeptide binding]; other site 634503001991 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 634503001992 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 634503001993 active site 634503001994 ATP-dependent helicase HepA; Validated; Region: PRK04914 634503001995 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 634503001996 ATP binding site [chemical binding]; other site 634503001997 putative Mg++ binding site [ion binding]; other site 634503001998 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 634503001999 nucleotide binding region [chemical binding]; other site 634503002000 ATP-binding site [chemical binding]; other site 634503002001 DNA polymerase II; Reviewed; Region: PRK05762 634503002002 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 634503002003 active site 634503002004 catalytic site [active] 634503002005 substrate binding site [chemical binding]; other site 634503002006 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 634503002007 active site 634503002008 metal-binding site 634503002009 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 634503002010 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634503002011 Walker A/P-loop; other site 634503002012 ATP binding site [chemical binding]; other site 634503002013 Q-loop/lid; other site 634503002014 ABC transporter signature motif; other site 634503002015 Walker B; other site 634503002016 D-loop; other site 634503002017 H-loop/switch region; other site 634503002018 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 634503002019 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 634503002020 dimer interface [polypeptide binding]; other site 634503002021 conserved gate region; other site 634503002022 putative PBP binding loops; other site 634503002023 ABC-ATPase subunit interface; other site 634503002024 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 634503002025 dimer interface [polypeptide binding]; other site 634503002026 conserved gate region; other site 634503002027 putative PBP binding loops; other site 634503002028 ABC-ATPase subunit interface; other site 634503002029 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 634503002030 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 634503002031 transcriptional regulator SgrR; Provisional; Region: PRK13626 634503002032 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 634503002033 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 634503002034 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 634503002035 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 634503002036 transmembrane helices; other site 634503002037 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634503002038 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 634503002039 Walker A/P-loop; other site 634503002040 ATP binding site [chemical binding]; other site 634503002041 Q-loop/lid; other site 634503002042 ABC transporter signature motif; other site 634503002043 Walker B; other site 634503002044 D-loop; other site 634503002045 H-loop/switch region; other site 634503002046 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 634503002047 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 634503002048 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 634503002049 Walker A/P-loop; other site 634503002050 ATP binding site [chemical binding]; other site 634503002051 Q-loop/lid; other site 634503002052 ABC transporter signature motif; other site 634503002053 Walker B; other site 634503002054 D-loop; other site 634503002055 H-loop/switch region; other site 634503002056 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 634503002057 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 634503002058 siderophore binding site; other site 634503002059 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 634503002060 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 634503002061 ABC-ATPase subunit interface; other site 634503002062 dimer interface [polypeptide binding]; other site 634503002063 putative PBP binding regions; other site 634503002064 FecCD transport family; Region: FecCD; pfam01032 634503002065 ABC-ATPase subunit interface; other site 634503002066 dimer interface [polypeptide binding]; other site 634503002067 putative PBP binding regions; other site 634503002068 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 634503002069 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 634503002070 N-terminal plug; other site 634503002071 ligand-binding site [chemical binding]; other site 634503002072 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 634503002073 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 634503002074 substrate binding site [chemical binding]; other site 634503002075 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 634503002076 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 634503002077 substrate binding site [chemical binding]; other site 634503002078 ligand binding site [chemical binding]; other site 634503002079 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 634503002080 tartrate dehydrogenase; Region: TTC; TIGR02089 634503002081 2-isopropylmalate synthase; Validated; Region: PRK00915 634503002082 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 634503002083 active site 634503002084 catalytic residues [active] 634503002085 metal binding site [ion binding]; metal-binding site 634503002086 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 634503002087 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 634503002088 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503002089 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 634503002090 putative substrate binding pocket [chemical binding]; other site 634503002091 putative dimerization interface [polypeptide binding]; other site 634503002092 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 634503002093 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 634503002094 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 634503002095 acyl-activating enzyme (AAE) consensus motif; other site 634503002096 putative AMP binding site [chemical binding]; other site 634503002097 putative active site [active] 634503002098 putative CoA binding site [chemical binding]; other site 634503002099 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 634503002100 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 634503002101 PYR/PP interface [polypeptide binding]; other site 634503002102 dimer interface [polypeptide binding]; other site 634503002103 TPP binding site [chemical binding]; other site 634503002104 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634503002105 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 634503002106 TPP-binding site [chemical binding]; other site 634503002107 dimer interface [polypeptide binding]; other site 634503002108 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 634503002109 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 634503002110 putative valine binding site [chemical binding]; other site 634503002111 dimer interface [polypeptide binding]; other site 634503002112 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 634503002113 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 634503002114 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 634503002115 DNA binding site [nucleotide binding] 634503002116 domain linker motif; other site 634503002117 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 634503002118 dimerization interface [polypeptide binding]; other site 634503002119 ligand binding site [chemical binding]; other site 634503002120 cell division protein MraZ; Reviewed; Region: PRK00326 634503002121 MraZ protein; Region: MraZ; pfam02381 634503002122 MraZ protein; Region: MraZ; pfam02381 634503002123 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 634503002124 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 634503002125 cell division protein FtsL; Provisional; Region: PRK10772 634503002126 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 634503002127 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 634503002128 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 634503002129 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 634503002130 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 634503002131 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634503002132 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 634503002133 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 634503002134 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 634503002135 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634503002136 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 634503002137 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 634503002138 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 634503002139 Mg++ binding site [ion binding]; other site 634503002140 putative catalytic motif [active] 634503002141 putative substrate binding site [chemical binding]; other site 634503002142 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 634503002143 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 634503002144 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634503002145 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 634503002146 cell division protein FtsW; Provisional; Region: PRK10774 634503002147 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 634503002148 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 634503002149 active site 634503002150 homodimer interface [polypeptide binding]; other site 634503002151 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 634503002152 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 634503002153 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634503002154 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 634503002155 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 634503002156 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 634503002157 ATP-grasp domain; Region: ATP-grasp_4; cl17255 634503002158 cell division protein FtsQ; Provisional; Region: PRK10775 634503002159 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 634503002160 Cell division protein FtsQ; Region: FtsQ; pfam03799 634503002161 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 634503002162 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 634503002163 Cell division protein FtsA; Region: FtsA; pfam14450 634503002164 cell division protein FtsZ; Validated; Region: PRK09330 634503002165 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 634503002166 nucleotide binding site [chemical binding]; other site 634503002167 SulA interaction site; other site 634503002168 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 634503002169 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 634503002170 Protein of unknown function (DUF721); Region: DUF721; cl02324 634503002171 SecA regulator SecM; Provisional; Region: PRK02943 634503002172 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 634503002173 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 634503002174 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; cl17351 634503002175 nucleotide binding region [chemical binding]; other site 634503002176 ATP-binding site [chemical binding]; other site 634503002177 SEC-C motif; Region: SEC-C; pfam02810 634503002178 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 634503002179 active site 634503002180 8-oxo-dGMP binding site [chemical binding]; other site 634503002181 nudix motif; other site 634503002182 metal binding site [ion binding]; metal-binding site 634503002183 DNA gyrase inhibitor; Reviewed; Region: PRK00418 634503002184 hypothetical protein; Provisional; Region: PRK05287 634503002185 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 634503002186 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 634503002187 CoA-binding site [chemical binding]; other site 634503002188 ATP-binding [chemical binding]; other site 634503002189 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 634503002190 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 634503002191 active site 634503002192 type IV pilin biogenesis protein; Provisional; Region: PRK10573 634503002193 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 634503002194 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 634503002195 hypothetical protein; Provisional; Region: PRK10436 634503002196 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 634503002197 Walker A motif; other site 634503002198 ATP binding site [chemical binding]; other site 634503002199 Walker B motif; other site 634503002200 putative major pilin subunit; Provisional; Region: PRK10574 634503002201 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 634503002202 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 634503002203 amidase catalytic site [active] 634503002204 Zn binding residues [ion binding]; other site 634503002205 substrate binding site [chemical binding]; other site 634503002206 regulatory protein AmpE; Provisional; Region: PRK10987 634503002207 aromatic amino acid transporter; Provisional; Region: PRK10238 634503002208 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 634503002209 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634503002210 DNA-binding site [nucleotide binding]; DNA binding site 634503002211 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 634503002212 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 634503002213 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 634503002214 dimer interface [polypeptide binding]; other site 634503002215 TPP-binding site [chemical binding]; other site 634503002216 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 634503002217 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 634503002218 E3 interaction surface; other site 634503002219 lipoyl attachment site [posttranslational modification]; other site 634503002220 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 634503002221 E3 interaction surface; other site 634503002222 lipoyl attachment site [posttranslational modification]; other site 634503002223 e3 binding domain; Region: E3_binding; pfam02817 634503002224 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 634503002225 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 634503002226 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634503002227 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634503002228 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 634503002229 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 634503002230 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 634503002231 substrate binding site [chemical binding]; other site 634503002232 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 634503002233 substrate binding site [chemical binding]; other site 634503002234 ligand binding site [chemical binding]; other site 634503002235 Protein of unknown function (DUF533); Region: DUF533; pfam04391 634503002236 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 634503002237 putative metal binding site [ion binding]; other site 634503002238 hypothetical protein; Provisional; Region: PRK05248 634503002239 aromatic amino acid exporter; Provisional; Region: PRK11689 634503002240 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 634503002241 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634503002242 active site 634503002243 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 634503002244 active site clefts [active] 634503002245 zinc binding site [ion binding]; other site 634503002246 dimer interface [polypeptide binding]; other site 634503002247 DNA-binding response regulator CreB; Provisional; Region: PRK11083 634503002248 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 634503002249 active site 634503002250 phosphorylation site [posttranslational modification] 634503002251 intermolecular recognition site; other site 634503002252 dimerization interface [polypeptide binding]; other site 634503002253 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 634503002254 DNA binding site [nucleotide binding] 634503002255 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 634503002256 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 634503002257 Walker A/P-loop; other site 634503002258 ATP binding site [chemical binding]; other site 634503002259 Q-loop/lid; other site 634503002260 ABC transporter signature motif; other site 634503002261 Walker B; other site 634503002262 D-loop; other site 634503002263 H-loop/switch region; other site 634503002264 inner membrane transport permease; Provisional; Region: PRK15066 634503002265 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 634503002266 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; cl00025 634503002267 active site 634503002268 active pocket/dimerization site; other site 634503002269 phosphorylation site [posttranslational modification] 634503002270 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 634503002271 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 634503002272 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 634503002273 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 634503002274 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 634503002275 active site 634503002276 phosphorylation site [posttranslational modification] 634503002277 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 634503002278 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 634503002279 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; cl00025 634503002280 active pocket/dimerization site; other site 634503002281 phosphorylation site [posttranslational modification] 634503002282 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; cl17181 634503002283 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 634503002284 putative active site [active] 634503002285 putative metal binding site [ion binding]; other site 634503002286 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 634503002287 tetramerization interface [polypeptide binding]; other site 634503002288 active site 634503002289 pantoate--beta-alanine ligase; Region: panC; TIGR00018 634503002290 Pantoate-beta-alanine ligase; Region: PanC; cd00560 634503002291 active site 634503002292 ATP-binding site [chemical binding]; other site 634503002293 pantoate-binding site; other site 634503002294 HXXH motif; other site 634503002295 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 634503002296 oligomerization interface [polypeptide binding]; other site 634503002297 active site 634503002298 metal binding site [ion binding]; metal-binding site 634503002299 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 634503002300 catalytic center binding site [active] 634503002301 ATP binding site [chemical binding]; other site 634503002302 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 634503002303 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 634503002304 active site 634503002305 NTP binding site [chemical binding]; other site 634503002306 metal binding triad [ion binding]; metal-binding site 634503002307 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 634503002308 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 634503002309 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 634503002310 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 634503002311 active site 634503002312 HIGH motif; other site 634503002313 nucleotide binding site [chemical binding]; other site 634503002314 active site 634503002315 KMSKS motif; other site 634503002316 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 634503002317 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 634503002318 2'-5' RNA ligase; Provisional; Region: PRK15124 634503002319 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 634503002320 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 634503002321 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 634503002322 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 634503002323 ATP binding site [chemical binding]; other site 634503002324 putative Mg++ binding site [ion binding]; other site 634503002325 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 634503002326 nucleotide binding region [chemical binding]; other site 634503002327 ATP-binding site [chemical binding]; other site 634503002328 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 634503002329 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 634503002330 Transglycosylase; Region: Transgly; pfam00912 634503002331 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 634503002332 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 634503002333 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 634503002334 trimer interface [polypeptide binding]; other site 634503002335 eyelet of channel; other site 634503002336 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 634503002337 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 634503002338 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 634503002339 metal binding site [ion binding]; metal-binding site 634503002340 hypothetical protein; Provisional; Region: PRK10726 634503002341 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 634503002342 thymidylate synthase; Reviewed; Region: thyA; PRK01827 634503002343 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 634503002344 dimerization interface [polypeptide binding]; other site 634503002345 active site 634503002346 hypothetical protein; Provisional; Region: PRK10506 634503002347 hypothetical protein; Provisional; Region: PRK10557 634503002348 Protein of unknown function (DUF2509); Region: DUF2509; cl11672 634503002349 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 634503002350 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 634503002351 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 634503002352 protease3; Provisional; Region: PRK15101 634503002353 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 634503002354 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 634503002355 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 634503002356 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 634503002357 Family description; Region: UvrD_C_2; pfam13538 634503002358 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 634503002359 AAA domain; Region: AAA_30; pfam13604 634503002360 Family description; Region: UvrD_C_2; pfam13538 634503002361 N-acetylglutamate synthase; Validated; Region: PRK05279 634503002362 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 634503002363 putative feedback inhibition sensing region; other site 634503002364 putative nucleotide binding site [chemical binding]; other site 634503002365 putative substrate binding site [chemical binding]; other site 634503002366 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634503002367 Coenzyme A binding pocket [chemical binding]; other site 634503002368 AMIN domain; Region: AMIN; pfam11741 634503002369 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 634503002370 active site 634503002371 metal binding site [ion binding]; metal-binding site 634503002372 murein transglycosylase A; Provisional; Region: mltA; PRK11162 634503002373 MltA specific insert domain; Region: MltA; pfam03562 634503002374 3D domain; Region: 3D; pfam06725 634503002375 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 634503002376 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 634503002377 putative ATP binding site [chemical binding]; other site 634503002378 putative substrate interface [chemical binding]; other site 634503002379 Fe-S metabolism associated domain; Region: SufE; cl00951 634503002380 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 634503002381 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 634503002382 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634503002383 catalytic residue [active] 634503002384 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 634503002385 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503002386 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 634503002387 dimerization interface [polypeptide binding]; other site 634503002388 substrate binding pocket [chemical binding]; other site 634503002389 hypothetical protein; Provisional; Region: PRK10873 634503002390 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 634503002391 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 634503002392 flap endonuclease-like protein; Provisional; Region: PRK09482 634503002393 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 634503002394 active site 634503002395 metal binding site 1 [ion binding]; metal-binding site 634503002396 putative 5' ssDNA interaction site; other site 634503002397 metal binding site 3; metal-binding site 634503002398 metal binding site 2 [ion binding]; metal-binding site 634503002399 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 634503002400 putative DNA binding site [nucleotide binding]; other site 634503002401 putative metal binding site [ion binding]; other site 634503002402 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 634503002403 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 634503002404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 634503002405 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 634503002406 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 634503002407 SecY interacting protein Syd; Provisional; Region: PRK04968 634503002408 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 634503002409 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 634503002410 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 634503002411 probable active site [active] 634503002412 flavodoxin; Provisional; Region: PRK08105 634503002413 hypothetical protein; Provisional; Region: PRK13677 634503002414 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 634503002415 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 634503002416 trimer interface [polypeptide binding]; other site 634503002417 active site 634503002418 substrate binding site [chemical binding]; other site 634503002419 CoA binding site [chemical binding]; other site 634503002420 PII uridylyl-transferase; Provisional; Region: PRK05007 634503002421 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 634503002422 metal binding triad; other site 634503002423 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 634503002424 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 634503002425 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 634503002426 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 634503002427 active site 634503002428 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 634503002429 rRNA interaction site [nucleotide binding]; other site 634503002430 S8 interaction site; other site 634503002431 putative laminin-1 binding site; other site 634503002432 elongation factor Ts; Provisional; Region: tsf; PRK09377 634503002433 UBA/TS-N domain; Region: UBA; pfam00627 634503002434 Elongation factor TS; Region: EF_TS; pfam00889 634503002435 Elongation factor TS; Region: EF_TS; pfam00889 634503002436 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 634503002437 putative nucleotide binding site [chemical binding]; other site 634503002438 uridine monophosphate binding site [chemical binding]; other site 634503002439 homohexameric interface [polypeptide binding]; other site 634503002440 ribosome recycling factor; Reviewed; Region: frr; PRK00083 634503002441 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 634503002442 hinge region; other site 634503002443 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 634503002444 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 634503002445 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 634503002446 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 634503002447 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 634503002448 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 634503002449 catalytic residue [active] 634503002450 putative FPP diphosphate binding site; other site 634503002451 putative FPP binding hydrophobic cleft; other site 634503002452 dimer interface [polypeptide binding]; other site 634503002453 putative IPP diphosphate binding site; other site 634503002454 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 634503002455 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 634503002456 zinc metallopeptidase RseP; Provisional; Region: PRK10779 634503002457 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 634503002458 active site 634503002459 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 634503002460 protein binding site [polypeptide binding]; other site 634503002461 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 634503002462 protein binding site [polypeptide binding]; other site 634503002463 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 634503002464 putative substrate binding region [chemical binding]; other site 634503002465 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 634503002466 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634503002467 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634503002468 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634503002469 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634503002470 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634503002471 Surface antigen; Region: Bac_surface_Ag; pfam01103 634503002472 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 634503002473 periplasmic chaperone; Provisional; Region: PRK10780 634503002474 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 634503002475 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 634503002476 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 634503002477 trimer interface [polypeptide binding]; other site 634503002478 active site 634503002479 UDP-GlcNAc binding site [chemical binding]; other site 634503002480 lipid binding site [chemical binding]; lipid-binding site 634503002481 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 634503002482 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 634503002483 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 634503002484 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 634503002485 RNA/DNA hybrid binding site [nucleotide binding]; other site 634503002486 active site 634503002487 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 634503002488 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 634503002489 putative active site [active] 634503002490 putative PHP Thumb interface [polypeptide binding]; other site 634503002491 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 634503002492 generic binding surface II; other site 634503002493 generic binding surface I; other site 634503002494 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 634503002495 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 634503002496 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 634503002497 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 634503002498 putative metal binding site [ion binding]; other site 634503002499 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 634503002500 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 634503002501 DNA binding site [nucleotide binding] 634503002502 lysine/cadaverine antiporter; Provisional; Region: cadB; PRK10435 634503002503 lysine decarboxylase CadA; Provisional; Region: PRK15400 634503002504 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 634503002505 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 634503002506 homodimer interface [polypeptide binding]; other site 634503002507 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503002508 catalytic residue [active] 634503002509 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 634503002510 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 634503002511 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 634503002512 putative substrate translocation pore; other site 634503002513 POT family; Region: PTR2; pfam00854 634503002514 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 634503002515 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 634503002516 Ligand Binding Site [chemical binding]; other site 634503002517 TilS substrate binding domain; Region: TilS; pfam09179 634503002518 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 634503002519 Cytochrome c; Region: Cytochrom_C; cl11414 634503002520 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 634503002521 hypothetical protein; Provisional; Region: PRK04964 634503002522 YaeQ protein; Region: YaeQ; pfam07152 634503002523 hypothetical protein; Provisional; Region: PRK09256 634503002524 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 634503002525 NlpE N-terminal domain; Region: NlpE; pfam04170 634503002526 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 634503002527 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503002528 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 634503002529 Helix-turn-helix domain; Region: HTH_37; pfam13744 634503002530 non-specific DNA binding site [nucleotide binding]; other site 634503002531 salt bridge; other site 634503002532 sequence-specific DNA binding site [nucleotide binding]; other site 634503002533 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 634503002534 Phage-related protein [Function unknown]; Region: COG4695; cl01923 634503002535 Phage portal protein; Region: Phage_portal; pfam04860 634503002536 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 634503002537 hypothetical protein; Provisional; Region: PRK11590 634503002538 putative alcohol dehydrogenase; Provisional; Region: PRK09860 634503002539 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 634503002540 dimer interface [polypeptide binding]; other site 634503002541 active site 634503002542 metal binding site [ion binding]; metal-binding site 634503002543 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 634503002544 active site residue [active] 634503002545 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 634503002546 nucleoside/Zn binding site; other site 634503002547 dimer interface [polypeptide binding]; other site 634503002548 catalytic motif [active] 634503002549 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 634503002550 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 634503002551 substrate binding pocket [chemical binding]; other site 634503002552 membrane-bound complex binding site; other site 634503002553 hinge residues; other site 634503002554 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 634503002555 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634503002556 catalytic residue [active] 634503002557 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 634503002558 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 634503002559 dimerization interface [polypeptide binding]; other site 634503002560 ATP binding site [chemical binding]; other site 634503002561 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 634503002562 dimerization interface [polypeptide binding]; other site 634503002563 ATP binding site [chemical binding]; other site 634503002564 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 634503002565 putative active site [active] 634503002566 catalytic triad [active] 634503002567 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634503002568 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 634503002569 dimer interface [polypeptide binding]; other site 634503002570 phosphorylation site [posttranslational modification] 634503002571 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 634503002572 ATP binding site [chemical binding]; other site 634503002573 Mg2+ binding site [ion binding]; other site 634503002574 G-X-G motif; other site 634503002575 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cd00890 634503002576 response regulator GlrR; Provisional; Region: PRK15115 634503002577 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 634503002578 active site 634503002579 phosphorylation site [posttranslational modification] 634503002580 intermolecular recognition site; other site 634503002581 dimerization interface [polypeptide binding]; other site 634503002582 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 634503002583 Walker A motif; other site 634503002584 ATP binding site [chemical binding]; other site 634503002585 Walker B motif; other site 634503002586 arginine finger; other site 634503002587 NAD synthetase; Provisional; Region: PRK13981 634503002588 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 634503002589 multimer interface [polypeptide binding]; other site 634503002590 active site 634503002591 catalytic triad [active] 634503002592 protein interface 1 [polypeptide binding]; other site 634503002593 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 634503002594 homodimer interface [polypeptide binding]; other site 634503002595 NAD binding pocket [chemical binding]; other site 634503002596 ATP binding pocket [chemical binding]; other site 634503002597 Mg binding site [ion binding]; other site 634503002598 active-site loop [active] 634503002599 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 634503002600 Nitrogen regulatory protein P-II; Region: P-II; smart00938 634503002601 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 634503002602 dimer interface [polypeptide binding]; other site 634503002603 active site 634503002604 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 634503002605 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 634503002606 putative active site [active] 634503002607 putative dimer interface [polypeptide binding]; other site 634503002608 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 634503002609 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 634503002610 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 634503002611 ApbE family; Region: ApbE; pfam02424 634503002612 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 634503002613 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 634503002614 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 634503002615 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634503002616 catalytic residue [active] 634503002617 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 634503002618 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634503002619 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 634503002620 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503002621 Y-family of DNA polymerases; Region: PolY; cl12025 634503002622 active site 634503002623 glutaminase; Reviewed; Region: PRK12356 634503002624 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 634503002625 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 634503002626 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 634503002627 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634503002628 catalytic residue [active] 634503002629 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 634503002630 active site 634503002631 DNA polymerase IV; Validated; Region: PRK02406 634503002632 DNA binding site [nucleotide binding] 634503002633 peptidase T; Region: peptidase-T; TIGR01882 634503002634 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 634503002635 metal binding site [ion binding]; metal-binding site 634503002636 dimer interface [polypeptide binding]; other site 634503002637 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 634503002638 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 634503002639 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 634503002640 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 634503002641 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 634503002642 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 634503002643 metal binding site [ion binding]; metal-binding site 634503002644 dimer interface [polypeptide binding]; other site 634503002645 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634503002646 active site 634503002647 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 634503002648 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 634503002649 gamma-glutamyl kinase; Provisional; Region: PRK05429 634503002650 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 634503002651 nucleotide binding site [chemical binding]; other site 634503002652 homotetrameric interface [polypeptide binding]; other site 634503002653 putative phosphate binding site [ion binding]; other site 634503002654 putative allosteric binding site; other site 634503002655 PUA domain; Region: PUA; pfam01472 634503002656 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 634503002657 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 634503002658 putative catalytic cysteine [active] 634503002659 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 634503002660 Prostaglandin dehydrogenases; Region: PGDH; cd05288 634503002661 NAD(P) binding site [chemical binding]; other site 634503002662 substrate binding site [chemical binding]; other site 634503002663 dimer interface [polypeptide binding]; other site 634503002664 YobH-like protein; Region: YobH; pfam13996 634503002665 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503002666 MULE transposase domain; Region: MULE; pfam10551 634503002667 Transposase, Mutator family; Region: Transposase_mut; pfam00872 634503002668 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 634503002669 Integrase core domain; Region: rve; pfam00665 634503002670 Integrase core domain; Region: rve_3; pfam13683 634503002671 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 634503002672 DNA-binding interface [nucleotide binding]; DNA binding site 634503002673 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503002674 MULE transposase domain; Region: MULE; pfam10551 634503002675 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 634503002676 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 634503002677 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 634503002678 Moco binding site; other site 634503002679 metal coordination site [ion binding]; other site 634503002680 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 634503002681 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 634503002682 active site 634503002683 HrpJ-like domain; Region: HrpJ; pfam07201 634503002684 TyeA; Region: TyeA; cl07611 634503002685 Type III secretion system subunit; Region: T3SS_LEE_assoc; pfam13327 634503002686 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 634503002687 Type III secretion needle MxiH like; Region: MxiH; pfam09392 634503002688 Protein of unknown function (DUF1039); Region: DUF1039; pfam06287 634503002689 Type III secretion needle MxiH like; Region: MxiH; cl09641 634503002690 Helix-turn-helix domain; Region: HTH_18; pfam12833 634503002691 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634503002692 Protein of unknown function (DUF1895); Region: DUF1895; cl07553 634503002693 type III secretion system protein SsaD; Provisional; Region: PRK15367 634503002694 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 634503002695 outer membrane secretin SsaC; Provisional; Region: PRK15346 634503002696 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 634503002697 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 634503002698 pathogenicity island 2 effector protein SseG; Provisional; Region: PRK15357 634503002699 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 634503002700 Tetratricopeptide repeat; Region: TPR_3; pfam07720 634503002701 pathogenicity island 2 effector protein SseE; Provisional; Region: PRK15360 634503002702 pathogenicity island 2 effector protein SseD; Provisional; Region: PRK15361 634503002703 pathogenicity island 2 effector protein SseC; Provisional; Region: PRK15362 634503002704 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 634503002705 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 634503002706 binding surface 634503002707 TPR motif; other site 634503002708 EspA-like secreted protein; Region: EspA; pfam03433 634503002709 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 634503002710 type III secretion system protein SsaQ; Validated; Region: PRK08035 634503002711 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 634503002712 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 634503002713 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 634503002714 Walker A motif/ATP binding site; other site 634503002715 Walker B motif; other site 634503002716 secretion system apparatus protein SsaV; Provisional; Region: PRK12720 634503002717 FHIPEP family; Region: FHIPEP; pfam00771 634503002718 type III secretion system protein SsaM; Provisional; Region: PRK15353 634503002719 type III secretion system protein YscR; Provisional; Region: PRK12797 634503002720 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 634503002721 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 634503002722 secretion system apparatus protein SsaU; Reviewed; Region: PRK12721 634503002723 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 634503002724 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 634503002725 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 634503002726 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634503002727 catalytic residue [active] 634503002728 two component system sensor kinase SsrA; Provisional; Region: PRK15347 634503002729 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 634503002730 dimer interface [polypeptide binding]; other site 634503002731 phosphorylation site [posttranslational modification] 634503002732 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 634503002733 ATP binding site [chemical binding]; other site 634503002734 Mg2+ binding site [ion binding]; other site 634503002735 G-X-G motif; other site 634503002736 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 634503002737 active site 634503002738 phosphorylation site [posttranslational modification] 634503002739 intermolecular recognition site; other site 634503002740 dimerization interface [polypeptide binding]; other site 634503002741 Hpt domain; Region: Hpt; pfam01627 634503002742 two component system sensor kinase SsrB; Provisional; Region: PRK15369 634503002743 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 634503002744 active site 634503002745 phosphorylation site [posttranslational modification] 634503002746 intermolecular recognition site; other site 634503002747 dimerization interface [polypeptide binding]; other site 634503002748 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 634503002749 DNA binding residues [nucleotide binding] 634503002750 dimerization interface [polypeptide binding]; other site 634503002751 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634503002752 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 634503002753 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 634503002754 dimer interface [polypeptide binding]; other site 634503002755 active site 634503002756 heme binding site [chemical binding]; other site 634503002757 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 634503002758 threonine/serine transporter TdcC; Provisional; Region: PRK13629 634503002759 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 634503002760 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503002761 MULE transposase domain; Region: MULE; pfam10551 634503002762 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 634503002763 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503002764 Salmonella outer protein D; Region: SopD; cl14701 634503002765 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 634503002766 conjugal transfer surface exclusion protein TraT; Provisional; Region: PRK13731 634503002767 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 634503002768 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 634503002769 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 634503002770 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 634503002771 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 634503002772 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 634503002773 haemagglutination activity domain; Region: Haemagg_act; pfam05860 634503002774 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 634503002775 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 634503002776 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 634503002777 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 634503002778 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 634503002779 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 634503002780 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 634503002781 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 634503002782 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 634503002783 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 634503002784 dimer interface [polypeptide binding]; other site 634503002785 FMN binding site [chemical binding]; other site 634503002786 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 634503002787 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 634503002788 putative active site [active] 634503002789 Transposase IS200 like; Region: Y1_Tnp; pfam01797 634503002790 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 634503002791 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 634503002792 Probable transposase; Region: OrfB_IS605; pfam01385 634503002793 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 634503002794 cell density-dependent motility repressor; Provisional; Region: PRK10082 634503002795 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503002796 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 634503002797 dimerization interface [polypeptide binding]; other site 634503002798 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 634503002799 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 634503002800 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 634503002801 substrate binding pocket [chemical binding]; other site 634503002802 membrane-bound complex binding site; other site 634503002803 hinge residues; other site 634503002804 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 634503002805 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 634503002806 putative PBP binding loops; other site 634503002807 ABC-ATPase subunit interface; other site 634503002808 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634503002809 ATP binding site [chemical binding]; other site 634503002810 ABC transporter; Region: ABC_tran; pfam00005 634503002811 Q-loop/lid; other site 634503002812 ABC transporter signature motif; other site 634503002813 Walker B; other site 634503002814 D-loop; other site 634503002815 H-loop/switch region; other site 634503002816 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 634503002817 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 634503002818 Class I aldolases; Region: Aldolase_Class_I; cl17187 634503002819 catalytic residue [active] 634503002820 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 634503002821 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 634503002822 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 634503002823 putative active site [active] 634503002824 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 634503002825 Na binding site [ion binding]; other site 634503002826 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 634503002827 HsdM N-terminal domain; Region: HsdM_N; pfam12161 634503002828 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 634503002829 Methyltransferase domain; Region: Methyltransf_26; pfam13659 634503002830 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634503002831 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634503002832 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634503002833 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 634503002834 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 634503002835 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 634503002836 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 634503002837 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 634503002838 Walker A motif; other site 634503002839 ATP binding site [chemical binding]; other site 634503002840 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 634503002841 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 634503002842 dUMP phosphatase; Provisional; Region: PRK09449 634503002843 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 634503002844 motif II; other site 634503002845 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 634503002846 molybdenum-pterin binding domain; Region: Mop; TIGR00638 634503002847 TOBE domain; Region: TOBE; cl01440 634503002848 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 634503002849 putative chaperone; Provisional; Region: PRK11678 634503002850 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 634503002851 nucleotide binding site [chemical binding]; other site 634503002852 putative NEF/HSP70 interaction site [polypeptide binding]; other site 634503002853 SBD interface [polypeptide binding]; other site 634503002854 PAS domain S-box; Region: sensory_box; TIGR00229 634503002855 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 634503002856 putative active site [active] 634503002857 heme pocket [chemical binding]; other site 634503002858 PAS fold; Region: PAS; pfam00989 634503002859 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 634503002860 putative active site [active] 634503002861 heme pocket [chemical binding]; other site 634503002862 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 634503002863 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 634503002864 metal binding site [ion binding]; metal-binding site 634503002865 active site 634503002866 I-site; other site 634503002867 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 634503002868 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 634503002869 MgtE intracellular N domain; Region: MgtE_N; pfam03448 634503002870 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 634503002871 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 634503002872 MASE1; Region: MASE1; cl17823 634503002873 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 634503002874 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 634503002875 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 634503002876 putative proline-specific permease; Provisional; Region: proY; PRK10580 634503002877 Spore germination protein; Region: Spore_permease; cl17796 634503002878 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 634503002879 Mechanosensitive ion channel; Region: MS_channel; pfam00924 634503002880 maltodextrin glucosidase; Provisional; Region: PRK10785 634503002881 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 634503002882 homodimer interface [polypeptide binding]; other site 634503002883 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 634503002884 active site 634503002885 homodimer interface [polypeptide binding]; other site 634503002886 catalytic site [active] 634503002887 peroxidase; Provisional; Region: PRK15000 634503002888 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 634503002889 dimer interface [polypeptide binding]; other site 634503002890 decamer (pentamer of dimers) interface [polypeptide binding]; other site 634503002891 catalytic triad [active] 634503002892 peroxidatic and resolving cysteines [active] 634503002893 Protein of unknown function, DUF479; Region: DUF479; cl01203 634503002894 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 634503002895 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 634503002896 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 634503002897 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 634503002898 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 634503002899 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 634503002900 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 634503002901 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 634503002902 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 634503002903 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 634503002904 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 634503002905 Protein export membrane protein; Region: SecD_SecF; pfam02355 634503002906 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 634503002907 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 634503002908 Walker A motif; other site 634503002909 ATP binding site [chemical binding]; other site 634503002910 Walker B motif; other site 634503002911 arginine finger; other site 634503002912 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 634503002913 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 634503002914 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 634503002915 putative substrate translocation pore; other site 634503002916 EthD domain; Region: EthD; cl17553 634503002917 EthD domain; Region: EthD; pfam07110 634503002918 EthD domain; Region: EthD; pfam07110 634503002919 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 634503002920 classical (c) SDRs; Region: SDR_c; cd05233 634503002921 NAD(P) binding site [chemical binding]; other site 634503002922 active site 634503002923 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 634503002924 classical (c) SDRs; Region: SDR_c; cd05233 634503002925 NAD(P) binding site [chemical binding]; other site 634503002926 active site 634503002927 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 634503002928 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 634503002929 active site 634503002930 FMN binding site [chemical binding]; other site 634503002931 substrate binding site [chemical binding]; other site 634503002932 putative catalytic residue [active] 634503002933 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 634503002934 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634503002935 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 634503002936 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 634503002937 active site 634503002938 FMN binding site [chemical binding]; other site 634503002939 substrate binding site [chemical binding]; other site 634503002940 putative catalytic residue [active] 634503002941 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 634503002942 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 634503002943 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634503002944 amino acid transporter; Region: 2A0306; TIGR00909 634503002945 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 634503002946 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 634503002947 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503002948 homodimer interface [polypeptide binding]; other site 634503002949 catalytic residue [active] 634503002950 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 634503002951 ATP cone domain; Region: ATP-cone; pfam03477 634503002952 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 634503002953 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 634503002954 catalytic motif [active] 634503002955 Zn binding site [ion binding]; other site 634503002956 RibD C-terminal domain; Region: RibD_C; cl17279 634503002957 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 634503002958 homopentamer interface [polypeptide binding]; other site 634503002959 active site 634503002960 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 634503002961 putative RNA binding site [nucleotide binding]; other site 634503002962 thiamine monophosphate kinase; Provisional; Region: PRK05731 634503002963 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 634503002964 ATP binding site [chemical binding]; other site 634503002965 dimerization interface [polypeptide binding]; other site 634503002966 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 634503002967 tetramer interfaces [polypeptide binding]; other site 634503002968 binuclear metal-binding site [ion binding]; other site 634503002969 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 634503002970 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 634503002971 TPP-binding site; other site 634503002972 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 634503002973 PYR/PP interface [polypeptide binding]; other site 634503002974 dimer interface [polypeptide binding]; other site 634503002975 TPP binding site [chemical binding]; other site 634503002976 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634503002977 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 634503002978 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 634503002979 substrate binding pocket [chemical binding]; other site 634503002980 chain length determination region; other site 634503002981 substrate-Mg2+ binding site; other site 634503002982 catalytic residues [active] 634503002983 aspartate-rich region 1; other site 634503002984 active site lid residues [active] 634503002985 aspartate-rich region 2; other site 634503002986 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 634503002987 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 634503002988 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 634503002989 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 634503002990 Ligand Binding Site [chemical binding]; other site 634503002991 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 634503002992 active site residue [active] 634503002993 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 634503002994 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634503002995 Walker A/P-loop; other site 634503002996 ATP binding site [chemical binding]; other site 634503002997 Q-loop/lid; other site 634503002998 ABC transporter signature motif; other site 634503002999 cobalt transport protein CbiM; Validated; Region: PRK06265 634503003000 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 634503003001 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 634503003002 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 634503003003 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 634503003004 conserved cys residue [active] 634503003005 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 634503003006 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 634503003007 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 634503003008 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 634503003009 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 634503003010 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 634503003011 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634503003012 putative substrate translocation pore; other site 634503003013 muropeptide transporter; Reviewed; Region: ampG; PRK11902 634503003014 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 634503003015 hypothetical protein; Provisional; Region: PRK11627 634503003016 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 634503003017 transcriptional regulator BolA; Provisional; Region: PRK11628 634503003018 trigger factor; Provisional; Region: tig; PRK01490 634503003019 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 634503003020 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 634503003021 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 634503003022 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 634503003023 oligomer interface [polypeptide binding]; other site 634503003024 active site residues [active] 634503003025 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 634503003026 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 634503003027 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 634503003028 Walker A motif; other site 634503003029 ATP binding site [chemical binding]; other site 634503003030 Walker B motif; other site 634503003031 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 634503003032 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 634503003033 Found in ATP-dependent protease La (LON); Region: LON; smart00464 634503003034 Found in ATP-dependent protease La (LON); Region: LON; smart00464 634503003035 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 634503003036 Walker A motif; other site 634503003037 ATP binding site [chemical binding]; other site 634503003038 Walker B motif; other site 634503003039 arginine finger; other site 634503003040 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 634503003041 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 634503003042 IHF dimer interface [polypeptide binding]; other site 634503003043 IHF - DNA interface [nucleotide binding]; other site 634503003044 periplasmic folding chaperone; Provisional; Region: PRK10788 634503003045 SurA N-terminal domain; Region: SurA_N_3; cl07813 634503003046 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 634503003047 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 634503003048 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 634503003049 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 634503003050 Ligand Binding Site [chemical binding]; other site 634503003051 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 634503003052 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 634503003053 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 634503003054 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 634503003055 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 634503003056 active site 634503003057 motif I; other site 634503003058 motif II; other site 634503003059 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; cl17915 634503003060 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 634503003061 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 634503003062 putative DNA binding site [nucleotide binding]; other site 634503003063 putative Zn2+ binding site [ion binding]; other site 634503003064 AsnC family; Region: AsnC_trans_reg; pfam01037 634503003065 Nitrogen regulatory protein P-II; Region: P-II; cl00412 634503003066 Nitrogen regulatory protein P-II; Region: P-II; smart00938 634503003067 ammonium transporter; Provisional; Region: PRK10666 634503003068 acyl-CoA thioesterase II; Provisional; Region: PRK10526 634503003069 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 634503003070 active site 634503003071 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 634503003072 catalytic triad [active] 634503003073 dimer interface [polypeptide binding]; other site 634503003074 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 634503003075 DNA binding site [nucleotide binding] 634503003076 active site 634503003077 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503003078 gene expression modulator; Provisional; Region: PRK10945 634503003079 Hha toxicity attenuator; Provisional; Region: PRK10667 634503003080 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 634503003081 Protein export membrane protein; Region: SecD_SecF; cl14618 634503003082 Protein export membrane protein; Region: SecD_SecF; cl14618 634503003083 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 634503003084 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634503003085 HlyD family secretion protein; Region: HlyD_3; pfam13437 634503003086 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 634503003087 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634503003088 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 634503003089 DsrE/DsrF-like family; Region: DrsE; cl00672 634503003090 hypothetical protein; Provisional; Region: PRK11281 634503003091 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 634503003092 Mechanosensitive ion channel; Region: MS_channel; pfam00924 634503003093 hypothetical protein; Provisional; Region: PRK11038 634503003094 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 634503003095 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 634503003096 hypothetical protein; Provisional; Region: PRK10527 634503003097 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634503003098 active site 634503003099 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 634503003100 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 634503003101 Walker A motif; other site 634503003102 ATP binding site [chemical binding]; other site 634503003103 Walker B motif; other site 634503003104 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 634503003105 arginine finger; other site 634503003106 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 634503003107 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 634503003108 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 634503003109 hypothetical protein; Validated; Region: PRK00153 634503003110 recombination protein RecR; Reviewed; Region: recR; PRK00076 634503003111 RecR protein; Region: RecR; pfam02132 634503003112 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 634503003113 putative active site [active] 634503003114 putative metal-binding site [ion binding]; other site 634503003115 tetramer interface [polypeptide binding]; other site 634503003116 Transposase, Mutator family; Region: Transposase_mut; pfam00872 634503003117 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 634503003118 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 634503003119 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634503003120 transcriptional repressor IclR; Provisional; Region: PRK11569 634503003121 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 634503003122 Bacterial transcriptional regulator; Region: IclR; pfam01614 634503003123 isocitrate lyase; Provisional; Region: PRK15063 634503003124 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 634503003125 tetramer interface [polypeptide binding]; other site 634503003126 active site 634503003127 Mg2+/Mn2+ binding site [ion binding]; other site 634503003128 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 634503003129 malate synthase A; Region: malate_syn_A; TIGR01344 634503003130 active site 634503003131 DDE superfamily endonuclease; Region: DDE_3; pfam13358 634503003132 heat shock protein 90; Provisional; Region: PRK05218 634503003133 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 634503003134 ATP binding site [chemical binding]; other site 634503003135 Mg2+ binding site [ion binding]; other site 634503003136 G-X-G motif; other site 634503003137 adenylate kinase; Reviewed; Region: adk; PRK00279 634503003138 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 634503003139 AMP-binding site [chemical binding]; other site 634503003140 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 634503003141 ferrochelatase; Reviewed; Region: hemH; PRK00035 634503003142 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 634503003143 C-terminal domain interface [polypeptide binding]; other site 634503003144 active site 634503003145 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 634503003146 active site 634503003147 N-terminal domain interface [polypeptide binding]; other site 634503003148 inosine/guanosine kinase; Provisional; Region: PRK15074 634503003149 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 634503003150 substrate binding site [chemical binding]; other site 634503003151 ATP binding site [chemical binding]; other site 634503003152 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 634503003153 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 634503003154 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 634503003155 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 634503003156 PapC N-terminal domain; Region: PapC_N; pfam13954 634503003157 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 634503003158 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 634503003159 PapC C-terminal domain; Region: PapC_C; pfam13953 634503003160 Fimbrial protein; Region: Fimbrial; pfam00419 634503003161 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 634503003162 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 634503003163 active site 634503003164 metal binding site [ion binding]; metal-binding site 634503003165 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 634503003166 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 634503003167 putative deacylase active site [active] 634503003168 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503003169 TraB family; Region: TraB; cl12050 634503003170 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 634503003171 metal-binding site [ion binding] 634503003172 copper exporting ATPase; Provisional; Region: copA; PRK10671 634503003173 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 634503003174 metal-binding site [ion binding] 634503003175 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 634503003176 metal-binding site [ion binding] 634503003177 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 634503003178 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 634503003179 motif II; other site 634503003180 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 634503003181 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 634503003182 DNA binding residues [nucleotide binding] 634503003183 dimer interface [polypeptide binding]; other site 634503003184 copper binding site [ion binding]; other site 634503003185 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 634503003186 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 634503003187 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 634503003188 HutD; Region: HutD; pfam05962 634503003189 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 634503003190 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 634503003191 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 634503003192 MFS_1 like family; Region: MFS_1_like; pfam12832 634503003193 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 634503003194 active site 634503003195 D-lactate dehydrogenase; Provisional; Region: PRK11183 634503003196 FAD binding domain; Region: FAD_binding_4; pfam01565 634503003197 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 634503003198 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 634503003199 dimerization interface [polypeptide binding]; other site 634503003200 putative DNA binding site [nucleotide binding]; other site 634503003201 putative Zn2+ binding site [ion binding]; other site 634503003202 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 634503003203 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634503003204 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 634503003205 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 634503003206 active site residue [active] 634503003207 Transthyretin_like. This domain is present in the transthyretin-like protein (TLP) family which includes transthyretin (TTR) and a transthyretin-related protein called 5-hydroxyisourate hydrolase (HIUase). TTR and HIUase are homotetrameric proteins...; Region: Transthyretin_like; cl17222 634503003208 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 634503003209 substrate binding site [chemical binding]; other site 634503003210 multimerization interface [polypeptide binding]; other site 634503003211 ATP binding site [chemical binding]; other site 634503003212 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 634503003213 dimer interface [polypeptide binding]; other site 634503003214 substrate binding site [chemical binding]; other site 634503003215 ATP binding site [chemical binding]; other site 634503003216 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 634503003217 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 634503003218 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 634503003219 catalytic residues [active] 634503003220 hinge region; other site 634503003221 alpha helical domain; other site 634503003222 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503003223 MULE transposase domain; Region: MULE; pfam10551 634503003224 Transposase; Region: DDE_Tnp_ISL3; pfam01610 634503003225 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 634503003226 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503003227 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 634503003228 dimerization interface [polypeptide binding]; other site 634503003229 putative protease; Provisional; Region: PRK15452 634503003230 Peptidase family U32; Region: Peptidase_U32; pfam01136 634503003231 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 634503003232 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 634503003233 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 634503003234 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 634503003235 active site 634503003236 phosphorylation site [posttranslational modification] 634503003237 intermolecular recognition site; other site 634503003238 dimerization interface [polypeptide binding]; other site 634503003239 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 634503003240 DNA binding site [nucleotide binding] 634503003241 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 634503003242 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 634503003243 dimerization interface [polypeptide binding]; other site 634503003244 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 634503003245 dimer interface [polypeptide binding]; other site 634503003246 phosphorylation site [posttranslational modification] 634503003247 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 634503003248 ATP binding site [chemical binding]; other site 634503003249 Mg2+ binding site [ion binding]; other site 634503003250 G-X-G motif; other site 634503003251 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 634503003252 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 634503003253 Protein export membrane protein; Region: SecD_SecF; cl14618 634503003254 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 634503003255 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634503003256 HlyD family secretion protein; Region: HlyD_3; pfam13437 634503003257 hypothetical protein; Provisional; Region: PRK10579 634503003258 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_24; cd04683 634503003259 nudix motif; other site 634503003260 recombination associated protein; Reviewed; Region: rdgC; PRK00321 634503003261 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 634503003262 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 634503003263 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634503003264 AAA domain; Region: AAA_23; pfam13476 634503003265 Walker A/P-loop; other site 634503003266 ATP binding site [chemical binding]; other site 634503003267 Q-loop/lid; other site 634503003268 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634503003269 ABC transporter signature motif; other site 634503003270 Walker B; other site 634503003271 D-loop; other site 634503003272 H-loop/switch region; other site 634503003273 exonuclease subunit SbcD; Provisional; Region: PRK10966 634503003274 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 634503003275 active site 634503003276 metal binding site [ion binding]; metal-binding site 634503003277 DNA binding site [nucleotide binding] 634503003278 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 634503003279 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 634503003280 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 634503003281 active site 634503003282 phosphorylation site [posttranslational modification] 634503003283 intermolecular recognition site; other site 634503003284 dimerization interface [polypeptide binding]; other site 634503003285 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 634503003286 DNA binding site [nucleotide binding] 634503003287 exopolyphosphatase; Provisional; Region: PRK10854 634503003288 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 634503003289 nucleotide binding site [chemical binding]; other site 634503003290 polyphosphate kinase; Provisional; Region: PRK05443 634503003291 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 634503003292 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 634503003293 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 634503003294 domain interface [polypeptide binding]; other site 634503003295 active site 634503003296 catalytic site [active] 634503003297 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 634503003298 domain interface [polypeptide binding]; other site 634503003299 active site 634503003300 catalytic site [active] 634503003301 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 634503003302 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634503003303 Coenzyme A binding pocket [chemical binding]; other site 634503003304 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 634503003305 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 634503003306 active site 634503003307 substrate binding site [chemical binding]; other site 634503003308 cosubstrate binding site; other site 634503003309 catalytic site [active] 634503003310 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 634503003311 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 634503003312 dimerization interface [polypeptide binding]; other site 634503003313 putative ATP binding site [chemical binding]; other site 634503003314 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634503003315 active site 634503003316 uracil transporter; Provisional; Region: PRK10720 634503003317 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 634503003318 DNA replication initiation factor; Provisional; Region: PRK08084 634503003319 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 634503003320 ArsC family; Region: ArsC; pfam03960 634503003321 catalytic residues [active] 634503003322 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 634503003323 Peptidase family M48; Region: Peptidase_M48; pfam01435 634503003324 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 634503003325 Domain of unknown function DUF20; Region: UPF0118; pfam01594 634503003326 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 634503003327 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 634503003328 catalytic triad [active] 634503003329 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 634503003330 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 634503003331 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 634503003332 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 634503003333 dihydrodipicolinate synthase; Region: dapA; TIGR00674 634503003334 dimer interface [polypeptide binding]; other site 634503003335 active site 634503003336 catalytic residue [active] 634503003337 lipoprotein; Provisional; Region: PRK11679 634503003338 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 634503003339 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 634503003340 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 634503003341 ATP binding site [chemical binding]; other site 634503003342 active site 634503003343 substrate binding site [chemical binding]; other site 634503003344 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 634503003345 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 634503003346 Helicase; Region: Helicase_RecD; pfam05127 634503003347 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634503003348 Coenzyme A binding pocket [chemical binding]; other site 634503003349 putative hydrolase; Provisional; Region: PRK11460 634503003350 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 634503003351 Uncharacterized protein family (UPF0370); Region: UPF0370; pfam13980 634503003352 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 634503003353 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 634503003354 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 634503003355 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 634503003356 metal binding site [ion binding]; metal-binding site 634503003357 dimer interface [polypeptide binding]; other site 634503003358 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 634503003359 ArsC family; Region: ArsC; pfam03960 634503003360 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 634503003361 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 634503003362 Autotransporter beta-domain; Region: Autotransporter; smart00869 634503003363 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 634503003364 transcriptional regulator NarP; Provisional; Region: PRK10403 634503003365 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 634503003366 active site 634503003367 phosphorylation site [posttranslational modification] 634503003368 intermolecular recognition site; other site 634503003369 dimerization interface [polypeptide binding]; other site 634503003370 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 634503003371 DNA binding residues [nucleotide binding] 634503003372 dimerization interface [polypeptide binding]; other site 634503003373 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 634503003374 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 634503003375 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 634503003376 dimerization interface [polypeptide binding]; other site 634503003377 Histidine kinase; Region: HisKA_3; pfam07730 634503003378 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 634503003379 ATP binding site [chemical binding]; other site 634503003380 Mg2+ binding site [ion binding]; other site 634503003381 G-X-G motif; other site 634503003382 ferredoxin-type protein; Provisional; Region: PRK10194 634503003383 4Fe-4S binding domain; Region: Fer4; cl02805 634503003384 assembly protein for periplasmic nitrate reductase; Provisional; Region: PRK10553 634503003385 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 634503003386 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 634503003387 [4Fe-4S] binding site [ion binding]; other site 634503003388 molybdopterin cofactor binding site; other site 634503003389 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 634503003390 molybdopterin cofactor binding site; other site 634503003391 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 634503003392 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 634503003393 4Fe-4S binding domain; Region: Fer4_5; pfam12801 634503003394 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 634503003395 nitrate reductase cytochrome C550 subunit; Provisional; Region: napB; PRK11586 634503003396 cytochrome c-type protein NapC; Provisional; Region: PRK10617 634503003397 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 634503003398 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 634503003399 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 634503003400 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 634503003401 putative NAD(P) binding site [chemical binding]; other site 634503003402 catalytic Zn binding site [ion binding]; other site 634503003403 structural Zn binding site [ion binding]; other site 634503003404 polyol permease family; Region: 2A0118; TIGR00897 634503003405 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 634503003406 putative substrate translocation pore; other site 634503003407 short chain dehydrogenase; Provisional; Region: PRK06841 634503003408 classical (c) SDRs; Region: SDR_c; cd05233 634503003409 NAD(P) binding site [chemical binding]; other site 634503003410 active site 634503003411 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 634503003412 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 634503003413 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 634503003414 DAK2 domain; Region: Dak2; cl03685 634503003415 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 634503003416 putative switch regulator; other site 634503003417 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 634503003418 non-specific DNA interactions [nucleotide binding]; other site 634503003419 DNA binding site [nucleotide binding] 634503003420 sequence specific DNA binding site [nucleotide binding]; other site 634503003421 putative cAMP binding site [chemical binding]; other site 634503003422 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 634503003423 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 634503003424 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 634503003425 dimer interface [polypeptide binding]; other site 634503003426 ADP-ribose binding site [chemical binding]; other site 634503003427 active site 634503003428 nudix motif; other site 634503003429 metal binding site [ion binding]; metal-binding site 634503003430 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 634503003431 Malic enzyme, N-terminal domain; Region: malic; pfam00390 634503003432 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 634503003433 putative NAD(P) binding site [chemical binding]; other site 634503003434 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 634503003435 Protein of unknown function, DUF399; Region: DUF399; pfam04187 634503003436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 634503003437 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 634503003438 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 634503003439 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 634503003440 active site 634503003441 metal binding site [ion binding]; metal-binding site 634503003442 putative acetyltransferase; Provisional; Region: PRK03624 634503003443 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634503003444 Coenzyme A binding pocket [chemical binding]; other site 634503003445 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 634503003446 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 634503003447 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 634503003448 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 634503003449 HPr interaction site; other site 634503003450 glycerol kinase (GK) interaction site [polypeptide binding]; other site 634503003451 active site 634503003452 phosphorylation site [posttranslational modification] 634503003453 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 634503003454 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 634503003455 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 634503003456 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 634503003457 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 634503003458 dimerization domain swap beta strand [polypeptide binding]; other site 634503003459 regulatory protein interface [polypeptide binding]; other site 634503003460 active site 634503003461 regulatory phosphorylation site [posttranslational modification]; other site 634503003462 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 634503003463 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 634503003464 dimer interface [polypeptide binding]; other site 634503003465 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503003466 catalytic residue [active] 634503003467 putative sulfate transport protein CysZ; Validated; Region: PRK04949 634503003468 cell division protein ZipA; Provisional; Region: PRK03427 634503003469 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 634503003470 FtsZ protein binding site [polypeptide binding]; other site 634503003471 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 634503003472 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 634503003473 nucleotide binding pocket [chemical binding]; other site 634503003474 K-X-D-G motif; other site 634503003475 catalytic site [active] 634503003476 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 634503003477 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 634503003478 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 634503003479 Dimer interface [polypeptide binding]; other site 634503003480 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 634503003481 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 634503003482 active site 634503003483 HIGH motif; other site 634503003484 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 634503003485 active site 634503003486 KMSKS motif; other site 634503003487 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 634503003488 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 634503003489 Nucleoside recognition; Region: Gate; pfam07670 634503003490 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 634503003491 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 634503003492 manganese transport protein MntH; Reviewed; Region: PRK00701 634503003493 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 634503003494 glucokinase; Provisional; Region: glk; PRK00292 634503003495 glucokinase, proteobacterial type; Region: glk; TIGR00749 634503003496 secY/secA suppressor protein; Provisional; Region: PRK11467 634503003497 DsrE/DsrF-like family; Region: DrsE; cl00672 634503003498 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 634503003499 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 634503003500 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 634503003501 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 634503003502 Ligand binding site; other site 634503003503 DXD motif; other site 634503003504 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 634503003505 aspartate racemase; Region: asp_race; TIGR00035 634503003506 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 634503003507 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 634503003508 ATP binding site [chemical binding]; other site 634503003509 substrate interface [chemical binding]; other site 634503003510 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 634503003511 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 634503003512 dimer interface [polypeptide binding]; other site 634503003513 putative functional site; other site 634503003514 putative MPT binding site; other site 634503003515 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 634503003516 active site 634503003517 hypothetical protein; Provisional; Region: PRK10835 634503003518 Predicted membrane protein [Function unknown]; Region: COG2311 634503003519 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 634503003520 putative active site [active] 634503003521 malate dehydrogenase; Provisional; Region: PRK13529 634503003522 Malic enzyme, N-terminal domain; Region: malic; pfam00390 634503003523 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 634503003524 NAD(P) binding site [chemical binding]; other site 634503003525 cytidine deaminase; Provisional; Region: PRK09027 634503003526 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 634503003527 active site 634503003528 catalytic motif [active] 634503003529 Zn binding site [ion binding]; other site 634503003530 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 634503003531 hypothetical protein; Provisional; Region: PRK10711 634503003532 hypothetical protein; Provisional; Region: PRK01821 634503003533 Predicted permeases [General function prediction only]; Region: RarD; COG2962 634503003534 exonuclease I; Provisional; Region: sbcB; PRK11779 634503003535 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 634503003536 active site 634503003537 catalytic site [active] 634503003538 substrate binding site [chemical binding]; other site 634503003539 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 634503003540 Predicted membrane protein [Function unknown]; Region: COG1289 634503003541 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634503003542 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 634503003543 DEAD_2; Region: DEAD_2; pfam06733 634503003544 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 634503003545 LPS O-antigen length regulator; Provisional; Region: PRK10381 634503003546 Chain length determinant protein; Region: Wzz; cl15801 634503003547 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 634503003548 endonuclease IV; Provisional; Region: PRK01060 634503003549 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 634503003550 AP (apurinic/apyrimidinic) site pocket; other site 634503003551 DNA interaction; other site 634503003552 Metal-binding active site; metal-binding site 634503003553 Predicted membrane protein [Function unknown]; Region: COG2855 634503003554 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 634503003555 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503003556 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 634503003557 putative dimerization interface [polypeptide binding]; other site 634503003558 lysine transporter; Provisional; Region: PRK10836 634503003559 Peptidase M16C associated; Region: M16C_assoc; pfam08367 634503003560 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 634503003561 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 634503003562 active site 634503003563 HIGH motif; other site 634503003564 KMSKS motif; other site 634503003565 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 634503003566 tRNA binding surface [nucleotide binding]; other site 634503003567 anticodon binding site; other site 634503003568 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 634503003569 dimer interface [polypeptide binding]; other site 634503003570 putative tRNA-binding site [nucleotide binding]; other site 634503003571 antiporter inner membrane protein; Provisional; Region: PRK11670 634503003572 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 634503003573 Walker A motif; other site 634503003574 EamA-like transporter family; Region: EamA; pfam00892 634503003575 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 634503003576 EamA-like transporter family; Region: EamA; pfam00892 634503003577 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 634503003578 trimer interface [polypeptide binding]; other site 634503003579 active site 634503003580 putative assembly protein; Provisional; Region: PRK10833 634503003581 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 634503003582 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 634503003583 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 634503003584 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 634503003585 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 634503003586 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 634503003587 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 634503003588 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634503003589 This family is most closely related to the GT1 family of glycosyltransferases and is named after WbdM in Escherichia coli. In general glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor...; Region: GT1_WbdM_like; cd04951 634503003590 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 634503003591 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 634503003592 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 634503003593 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634503003594 NAD(P) binding site [chemical binding]; other site 634503003595 active site 634503003596 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 634503003597 active site 634503003598 tetramer interface; other site 634503003599 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 634503003600 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 634503003601 NAD binding site [chemical binding]; other site 634503003602 homodimer interface [polypeptide binding]; other site 634503003603 active site 634503003604 substrate binding site [chemical binding]; other site 634503003605 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 634503003606 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 634503003607 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 634503003608 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 634503003609 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 634503003610 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 634503003611 putative NAD(P) binding site [chemical binding]; other site 634503003612 active site 634503003613 putative substrate binding site [chemical binding]; other site 634503003614 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 634503003615 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 634503003616 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 634503003617 putative trimer interface [polypeptide binding]; other site 634503003618 putative CoA binding site [chemical binding]; other site 634503003619 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 634503003620 NeuB family; Region: NeuB; pfam03102 634503003621 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 634503003622 NeuB binding interface [polypeptide binding]; other site 634503003623 putative substrate binding site [chemical binding]; other site 634503003624 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 634503003625 ligand binding site; other site 634503003626 tetramer interface; other site 634503003627 NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: NnaC_like; cd01841 634503003628 active site 634503003629 catalytic triad [active] 634503003630 oxyanion hole [active] 634503003631 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 634503003632 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 634503003633 active site 634503003634 homodimer interface [polypeptide binding]; other site 634503003635 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 634503003636 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 634503003637 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 634503003638 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 634503003639 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 634503003640 hypothetical protein; Provisional; Region: PRK05423 634503003641 HTH-like domain; Region: HTH_21; pfam13276 634503003642 Integrase core domain; Region: rve; pfam00665 634503003643 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503003644 MULE transposase domain; Region: MULE; pfam10551 634503003645 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 634503003646 pathogenicity island 2 effector protein SseI; Provisional; Region: PRK15372 634503003647 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 634503003648 pathogenicity island 2 effector protein SseI; Provisional; Region: PRK15372 634503003649 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 634503003650 Leucine-rich repeats, bacterial type; Region: LRR_BAC; smart00364 634503003651 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 634503003652 putative CoA binding site [chemical binding]; other site 634503003653 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 634503003654 putative trimer interface [polypeptide binding]; other site 634503003655 putative active site [active] 634503003656 putative substrate binding site [chemical binding]; other site 634503003657 putative CoA binding site [chemical binding]; other site 634503003658 Short C-terminal domain; Region: SHOCT; pfam09851 634503003659 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 634503003660 putative metal dependent hydrolase; Provisional; Region: PRK11598 634503003661 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 634503003662 Sulfatase; Region: Sulfatase; pfam00884 634503003663 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK12468 634503003664 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 634503003665 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 634503003666 FHIPEP family; Region: FHIPEP; pfam00771 634503003667 Flagellar protein FlhE; Region: FlhE; pfam06366 634503003668 FlgN protein; Region: FlgN; cl09176 634503003669 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 634503003670 SAF-like; Region: SAF_2; pfam13144 634503003671 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 634503003672 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 634503003673 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 634503003674 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 634503003675 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 634503003676 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 634503003677 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 634503003678 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 634503003679 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 634503003680 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 634503003681 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 634503003682 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 634503003683 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 634503003684 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 634503003685 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 634503003686 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 634503003687 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 634503003688 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 634503003689 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 634503003690 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 634503003691 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 634503003692 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 634503003693 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 634503003694 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 634503003695 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 634503003696 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 634503003697 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 634503003698 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 634503003699 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 634503003700 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 634503003701 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 634503003702 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 634503003703 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 634503003704 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 634503003705 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503003706 homodimer interface [polypeptide binding]; other site 634503003707 catalytic residue [active] 634503003708 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 634503003709 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 634503003710 trimer interface [polypeptide binding]; other site 634503003711 eyelet of channel; other site 634503003712 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 634503003713 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 634503003714 putative dimer interface [polypeptide binding]; other site 634503003715 putative anticodon binding site; other site 634503003716 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 634503003717 homodimer interface [polypeptide binding]; other site 634503003718 motif 1; other site 634503003719 motif 2; other site 634503003720 active site 634503003721 motif 3; other site 634503003722 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 634503003723 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 634503003724 active site 634503003725 aminopeptidase N; Provisional; Region: pepN; PRK14015 634503003726 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 634503003727 active site 634503003728 Zn binding site [ion binding]; other site 634503003729 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634503003730 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503003731 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 634503003732 dimerization interface [polypeptide binding]; other site 634503003733 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_2; cd07253 634503003734 dimer interface [polypeptide binding]; other site 634503003735 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 634503003736 metal binding site [ion binding]; metal-binding site 634503003737 Citrate transporter; Region: CitMHS; pfam03600 634503003738 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 634503003739 transketolase; Reviewed; Region: PRK05899 634503003740 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 634503003741 TPP-binding site [chemical binding]; other site 634503003742 dimer interface [polypeptide binding]; other site 634503003743 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 634503003744 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 634503003745 PYR/PP interface [polypeptide binding]; other site 634503003746 dimer interface [polypeptide binding]; other site 634503003747 TPP binding site [chemical binding]; other site 634503003748 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634503003749 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 634503003750 active site 634503003751 catalytic residues [active] 634503003752 metal binding site [ion binding]; metal-binding site 634503003753 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 634503003754 CoA-transferase family III; Region: CoA_transf_3; pfam02515 634503003755 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 634503003756 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 634503003757 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 634503003758 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 634503003759 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 634503003760 quinone interaction residues [chemical binding]; other site 634503003761 active site 634503003762 catalytic residues [active] 634503003763 FMN binding site [chemical binding]; other site 634503003764 substrate binding site [chemical binding]; other site 634503003765 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 634503003766 Ion channel; Region: Ion_trans_2; pfam07885 634503003767 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 634503003768 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 634503003769 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 634503003770 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 634503003771 S-adenosylmethionine binding site [chemical binding]; other site 634503003772 ABC transporter ATPase component; Reviewed; Region: PRK11147 634503003773 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634503003774 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634503003775 ABC transporter; Region: ABC_tran_2; pfam12848 634503003776 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634503003777 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 634503003778 Paraquat-inducible protein A; Region: PqiA; pfam04403 634503003779 Paraquat-inducible protein A; Region: PqiA; pfam04403 634503003780 paraquat-inducible protein B; Provisional; Region: PRK10807 634503003781 mce related protein; Region: MCE; pfam02470 634503003782 mce related protein; Region: MCE; pfam02470 634503003783 mce related protein; Region: MCE; pfam02470 634503003784 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 634503003785 Protein of unknown function (DUF330); Region: DUF330; pfam03886 634503003786 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 634503003787 active site 1 [active] 634503003788 dimer interface [polypeptide binding]; other site 634503003789 active site 2 [active] 634503003790 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 634503003791 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 634503003792 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 634503003793 outer membrane protein A; Reviewed; Region: PRK10808 634503003794 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 634503003795 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 634503003796 ligand binding site [chemical binding]; other site 634503003797 SOS cell division inhibitor; Provisional; Region: PRK10595 634503003798 TfoX N-terminal domain; Region: TfoX_N; pfam04993 634503003799 TfoX C-terminal domain; Region: TfoX_C; pfam04994 634503003800 TIGR01666 family membrane protein; Region: YCCS 634503003801 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 634503003802 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634503003803 Predicted membrane protein [Function unknown]; Region: COG3304 634503003804 Domain of unknown function (DUF307); Region: DUF307; pfam03733 634503003805 Domain of unknown function (DUF307); Region: DUF307; pfam03733 634503003806 DNA helicase IV; Provisional; Region: helD; PRK11054 634503003807 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 634503003808 Part of AAA domain; Region: AAA_19; pfam13245 634503003809 Family description; Region: UvrD_C_2; pfam13538 634503003810 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 634503003811 active site 634503003812 dimer interfaces [polypeptide binding]; other site 634503003813 catalytic residues [active] 634503003814 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 634503003815 CoA binding domain; Region: CoA_binding; cl17356 634503003816 heat shock protein HspQ; Provisional; Region: PRK14129 634503003817 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 634503003818 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 634503003819 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 634503003820 putative RNA binding site [nucleotide binding]; other site 634503003821 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 634503003822 S-adenosylmethionine binding site [chemical binding]; other site 634503003823 acylphosphatase; Provisional; Region: PRK14426 634503003824 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 634503003825 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 634503003826 HflBKC-binding inner membrane protein; Provisional; Region: PRK10447 634503003827 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 634503003828 The Resistance to Homoserine/Threonine (RhtB) Family protein; Region: 2A76; TIGR00949 634503003829 regulatory protein UhpC; Provisional; Region: PRK11663 634503003830 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 634503003831 putative substrate translocation pore; other site 634503003832 palmytilated EEV membrane glycoprotein; Provisional; Region: PHA03003 634503003833 Putative catalytic domain, repeat 1, of vertebrate phospholipases, PLD3, PLD4 and PLD5, viral envelope proteins K4 and p37, and similar proteins; Region: PLDc_vPLD3_4_5_like_1; cd09106 634503003834 putative active site [active] 634503003835 putative catalytic site [active] 634503003836 Putative catalytic domain, repeat 2, of vertebrate phospholipases, PLD3, PLD4 and PLD5, viral envelope proteins K4 and p37, and similar proteins; Region: PLDc_vPLD3_4_5_like_2; cd09107 634503003837 putative active site [active] 634503003838 putative catalytic site [active] 634503003839 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 634503003840 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 634503003841 inhibitor-cofactor binding pocket; inhibition site 634503003842 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503003843 catalytic residue [active] 634503003844 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 634503003845 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 634503003846 Ligand binding site; other site 634503003847 Putative Catalytic site; other site 634503003848 DXD motif; other site 634503003849 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 634503003850 ArnA, N-terminal formyltransferase domain; Region: FMT_core_ArnA_N; cd08644 634503003851 substrate binding site [chemical binding]; other site 634503003852 cosubstrate binding site; other site 634503003853 catalytic site [active] 634503003854 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 634503003855 active site 634503003856 hexamer interface [polypeptide binding]; other site 634503003857 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 634503003858 NAD binding site [chemical binding]; other site 634503003859 substrate binding site [chemical binding]; other site 634503003860 active site 634503003861 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 634503003862 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 634503003863 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 634503003864 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 634503003865 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 634503003866 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 634503003867 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 634503003868 trimer interface [polypeptide binding]; other site 634503003869 active site 634503003870 substrate binding site [chemical binding]; other site 634503003871 CoA binding site [chemical binding]; other site 634503003872 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 634503003873 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 634503003874 FAD binding pocket [chemical binding]; other site 634503003875 conserved FAD binding motif [chemical binding]; other site 634503003876 phosphate binding motif [ion binding]; other site 634503003877 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 634503003878 DNA-binding site [nucleotide binding]; DNA binding site 634503003879 RNA-binding motif; other site 634503003880 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 634503003881 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503003882 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 634503003883 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 634503003884 Domain of unknown function (DUF333); Region: DUF333; pfam03891 634503003885 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503003886 MULE transposase domain; Region: MULE; pfam10551 634503003887 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 634503003888 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 634503003889 catalytic core [active] 634503003890 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 634503003891 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 634503003892 Isochorismatase family; Region: Isochorismatase; pfam00857 634503003893 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 634503003894 catalytic triad [active] 634503003895 conserved cis-peptide bond; other site 634503003896 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 634503003897 Sulfatase; Region: Sulfatase; pfam00884 634503003898 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 634503003899 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 634503003900 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 634503003901 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 634503003902 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 634503003903 dimerization interface [polypeptide binding]; other site 634503003904 DNA binding residues [nucleotide binding] 634503003905 transcriptional activator FlhD; Provisional; Region: PRK02909 634503003906 transcriptional activator FlhC; Provisional; Region: PRK12722 634503003907 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 634503003908 flagellar motor protein MotA; Validated; Region: PRK09110 634503003909 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 634503003910 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 634503003911 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 634503003912 ligand binding site [chemical binding]; other site 634503003913 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503003914 chemotaxis protein CheA; Provisional; Region: PRK10547 634503003915 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 634503003916 putative binding surface; other site 634503003917 active site 634503003918 CheY binding; Region: CheY-binding; pfam09078 634503003919 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 634503003920 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 634503003921 ATP binding site [chemical binding]; other site 634503003922 Mg2+ binding site [ion binding]; other site 634503003923 G-X-G motif; other site 634503003924 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 634503003925 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 634503003926 putative CheA interaction surface; other site 634503003927 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 634503003928 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 634503003929 dimer interface [polypeptide binding]; other site 634503003930 ligand binding site [chemical binding]; other site 634503003931 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 634503003932 dimerization interface [polypeptide binding]; other site 634503003933 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 634503003934 dimer interface [polypeptide binding]; other site 634503003935 putative CheW interface [polypeptide binding]; other site 634503003936 methyl-accepting protein IV; Provisional; Region: PRK09793 634503003937 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 634503003938 dimer interface [polypeptide binding]; other site 634503003939 ligand binding site [chemical binding]; other site 634503003940 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 634503003941 dimerization interface [polypeptide binding]; other site 634503003942 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 634503003943 dimer interface [polypeptide binding]; other site 634503003944 putative CheW interface [polypeptide binding]; other site 634503003945 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 634503003946 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 634503003947 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 634503003948 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 634503003949 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 634503003950 active site 634503003951 phosphorylation site [posttranslational modification] 634503003952 intermolecular recognition site; other site 634503003953 dimerization interface [polypeptide binding]; other site 634503003954 CheB methylesterase; Region: CheB_methylest; pfam01339 634503003955 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 634503003956 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 634503003957 active site 634503003958 phosphorylation site [posttranslational modification] 634503003959 intermolecular recognition site; other site 634503003960 dimerization interface [polypeptide binding]; other site 634503003961 chemotaxis regulator CheZ; Provisional; Region: PRK11166 634503003962 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 634503003963 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 634503003964 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 634503003965 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 634503003966 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 634503003967 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 634503003968 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 634503003969 putative metal binding site [ion binding]; other site 634503003970 dimer interface [polypeptide binding]; other site 634503003971 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 634503003972 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 634503003973 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503003974 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 634503003975 putative substrate binding pocket [chemical binding]; other site 634503003976 putative dimerization interface [polypeptide binding]; other site 634503003977 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 634503003978 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 634503003979 isoaspartyl dipeptidase; Provisional; Region: PRK10657 634503003980 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 634503003981 active site 634503003982 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634503003983 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503003984 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 634503003985 dimerization interface [polypeptide binding]; other site 634503003986 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 634503003987 N-terminal domain of type IIE restriction endonuclease EcoRII and similar proteins; Region: EcoRII_N; cd10016 634503003988 DNA binding site [nucleotide binding] 634503003989 EcoRII C terminal; Region: EcoRII-C; pfam09019 634503003990 DNA cytosine methylase; Provisional; Region: PRK10458 634503003991 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 634503003992 cofactor binding site; other site 634503003993 DNA binding site [nucleotide binding] 634503003994 substrate interaction site [chemical binding]; other site 634503003995 Transposase; Region: HTH_Tnp_1; cl17663 634503003996 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 634503003997 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634503003998 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 634503003999 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503004000 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634503004001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 634503004002 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 634503004003 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 634503004004 ATP binding site [chemical binding]; other site 634503004005 Mg++ binding site [ion binding]; other site 634503004006 motif III; other site 634503004007 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 634503004008 nucleotide binding region [chemical binding]; other site 634503004009 ATP-binding site [chemical binding]; other site 634503004010 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 634503004011 putative RNA binding site [nucleotide binding]; other site 634503004012 Transposase IS200 like; Region: Y1_Tnp; pfam01797 634503004013 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 634503004014 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 634503004015 Probable transposase; Region: OrfB_IS605; pfam01385 634503004016 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503004017 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 634503004018 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 634503004019 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 634503004020 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 634503004021 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 634503004022 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503004023 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503004024 Protein of unknown function (DUF433); Region: DUF433; cl01030 634503004025 MULE transposase domain; Region: MULE; pfam10551 634503004026 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503004027 Anthrax toxin LF subunit; Region: Anthrax_toxA; pfam03497 634503004028 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503004029 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634503004030 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 634503004031 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 634503004032 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 634503004033 SnoaL-like domain; Region: SnoaL_3; pfam13474 634503004034 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 634503004035 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 634503004036 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 634503004037 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 634503004038 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 634503004039 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 634503004040 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 634503004041 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634503004042 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503004043 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503004044 MULE transposase domain; Region: MULE; pfam10551 634503004045 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 634503004046 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634503004047 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 634503004048 putative fimbrial chaperone protein; Provisional; Region: PRK09918 634503004049 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 634503004050 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 634503004051 PapC N-terminal domain; Region: PapC_N; pfam13954 634503004052 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 634503004053 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634503004054 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503004055 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 634503004056 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 634503004057 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 634503004058 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 634503004059 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 634503004060 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 634503004061 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 634503004062 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 634503004063 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 634503004064 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 634503004065 GTP-binding protein YchF; Reviewed; Region: PRK09601 634503004066 YchF GTPase; Region: YchF; cd01900 634503004067 G1 box; other site 634503004068 GTP/Mg2+ binding site [chemical binding]; other site 634503004069 Switch I region; other site 634503004070 G2 box; other site 634503004071 Switch II region; other site 634503004072 G3 box; other site 634503004073 G4 box; other site 634503004074 G5 box; other site 634503004075 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 634503004076 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 634503004077 putative active site [active] 634503004078 catalytic residue [active] 634503004079 hypothetical protein; Provisional; Region: PRK10692 634503004080 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 634503004081 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 634503004082 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634503004083 active site 634503004084 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 634503004085 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 634503004086 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 634503004087 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 634503004088 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 634503004089 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 634503004090 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 634503004091 tRNA; other site 634503004092 putative tRNA binding site [nucleotide binding]; other site 634503004093 putative NADP binding site [chemical binding]; other site 634503004094 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 634503004095 peptide chain release factor 1; Validated; Region: prfA; PRK00591 634503004096 This domain is found in peptide chain release factors; Region: PCRF; smart00937 634503004097 RF-1 domain; Region: RF-1; pfam00472 634503004098 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 634503004099 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 634503004100 hypothetical protein; Provisional; Region: PRK10941 634503004101 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 634503004102 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 634503004103 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 634503004104 putative transporter; Provisional; Region: PRK11660 634503004105 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 634503004106 Sulfate transporter family; Region: Sulfate_transp; pfam00916 634503004107 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 634503004108 hypothetical protein; Provisional; Region: PRK02487 634503004109 hypothetical protein; Provisional; Region: PRK11622 634503004110 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 634503004111 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 634503004112 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 634503004113 POT family; Region: PTR2; cl17359 634503004114 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 634503004115 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 634503004116 putative ligand binding site [chemical binding]; other site 634503004117 NAD binding site [chemical binding]; other site 634503004118 dimerization interface [polypeptide binding]; other site 634503004119 catalytic site [active] 634503004120 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 634503004121 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 634503004122 metal binding site [ion binding]; metal-binding site 634503004123 active site 634503004124 I-site; other site 634503004125 putative hydrolase; Validated; Region: PRK09248 634503004126 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 634503004127 active site 634503004128 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 634503004129 lipoprotein; Provisional; Region: PRK10598 634503004130 multidrug resistance protein MdtH; Provisional; Region: PRK11646 634503004131 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 634503004132 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 634503004133 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 634503004134 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 634503004135 hypothetical protein; Provisional; Region: PRK11239 634503004136 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 634503004137 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 634503004138 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 634503004139 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 634503004140 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 634503004141 active site 634503004142 HIGH motif; other site 634503004143 KMSK motif region; other site 634503004144 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 634503004145 tRNA binding surface [nucleotide binding]; other site 634503004146 anticodon binding site; other site 634503004147 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 634503004148 putative metal binding site [ion binding]; other site 634503004149 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 634503004150 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 634503004151 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503004152 homodimer interface [polypeptide binding]; other site 634503004153 catalytic residue [active] 634503004154 copper homeostasis protein CutC; Provisional; Region: PRK11572 634503004155 Methyltransferase domain; Region: Methyltransf_23; pfam13489 634503004156 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 634503004157 S-adenosylmethionine binding site [chemical binding]; other site 634503004158 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 634503004159 S-adenosylmethionine binding site [chemical binding]; other site 634503004160 phenylalanine transporter; Provisional; Region: PRK10249 634503004161 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 634503004162 hypothetical protein; Provisional; Region: PRK10302 634503004163 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 634503004164 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 634503004165 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 634503004166 dimer interface [polypeptide binding]; other site 634503004167 anticodon binding site; other site 634503004168 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 634503004169 homodimer interface [polypeptide binding]; other site 634503004170 motif 1; other site 634503004171 active site 634503004172 motif 2; other site 634503004173 GAD domain; Region: GAD; pfam02938 634503004174 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 634503004175 active site 634503004176 motif 3; other site 634503004177 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 634503004178 nudix motif; other site 634503004179 hypothetical protein; Validated; Region: PRK00110 634503004180 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 634503004181 active site 634503004182 putative DNA-binding cleft [nucleotide binding]; other site 634503004183 dimer interface [polypeptide binding]; other site 634503004184 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 634503004185 RuvA N terminal domain; Region: RuvA_N; pfam01330 634503004186 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 634503004187 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 634503004188 Walker A motif; other site 634503004189 ATP binding site [chemical binding]; other site 634503004190 Walker B motif; other site 634503004191 arginine finger; other site 634503004192 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 634503004193 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 634503004194 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 634503004195 ABC-ATPase subunit interface; other site 634503004196 dimer interface [polypeptide binding]; other site 634503004197 putative PBP binding regions; other site 634503004198 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 634503004199 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 634503004200 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 634503004201 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 634503004202 metal binding site [ion binding]; metal-binding site 634503004203 putative peptidase; Provisional; Region: PRK11649 634503004204 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 634503004205 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 634503004206 Peptidase family M23; Region: Peptidase_M23; pfam01551 634503004207 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 634503004208 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 634503004209 putative acyl-acceptor binding pocket; other site 634503004210 pyruvate kinase; Provisional; Region: PRK05826 634503004211 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; cl17342 634503004212 domain interfaces; other site 634503004213 active site 634503004214 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 634503004215 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 634503004216 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 634503004217 putative active site [active] 634503004218 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 634503004219 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 634503004220 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 634503004221 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 634503004222 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 634503004223 putative active site [active] 634503004224 phosphogluconate dehydratase; Validated; Region: PRK09054 634503004225 6-phosphogluconate dehydratase; Region: edd; TIGR01196 634503004226 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 634503004227 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 634503004228 active site 634503004229 intersubunit interface [polypeptide binding]; other site 634503004230 catalytic residue [active] 634503004231 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 634503004232 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 634503004233 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; cl10015 634503004234 homotrimer interaction site [polypeptide binding]; other site 634503004235 putative active site [active] 634503004236 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 634503004237 DEAD/DEAH box helicase; Region: DEAD; pfam00270 634503004238 ATP binding site [chemical binding]; other site 634503004239 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 634503004240 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 634503004241 Glycoprotease family; Region: Peptidase_M22; pfam00814 634503004242 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 634503004243 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 634503004244 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 634503004245 acyl-activating enzyme (AAE) consensus motif; other site 634503004246 putative AMP binding site [chemical binding]; other site 634503004247 putative active site [active] 634503004248 putative CoA binding site [chemical binding]; other site 634503004249 ribonuclease D; Provisional; Region: PRK10829 634503004250 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 634503004251 catalytic site [active] 634503004252 putative active site [active] 634503004253 putative substrate binding site [chemical binding]; other site 634503004254 HRDC domain; Region: HRDC; pfam00570 634503004255 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 634503004256 cell division inhibitor MinD; Provisional; Region: PRK10818 634503004257 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 634503004258 Switch I; other site 634503004259 Switch II; other site 634503004260 septum formation inhibitor; Reviewed; Region: minC; PRK03511 634503004261 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 634503004262 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 634503004263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 634503004264 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 634503004265 hypothetical protein; Provisional; Region: PRK10691 634503004266 hypothetical protein; Provisional; Region: PRK05170 634503004267 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 634503004268 Ligand Binding Site [chemical binding]; other site 634503004269 disulfide bond formation protein B; Provisional; Region: PRK01749 634503004270 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 634503004271 fatty acid metabolism regulator; Provisional; Region: PRK04984 634503004272 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634503004273 DNA-binding site [nucleotide binding]; DNA binding site 634503004274 FadR C-terminal domain; Region: FadR_C; pfam07840 634503004275 SpoVR family protein; Provisional; Region: PRK11767 634503004276 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 634503004277 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 634503004278 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634503004279 hydroxyglutarate oxidase; Provisional; Region: PRK11728 634503004280 hypothetical protein; Provisional; Region: PRK10174 634503004281 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 634503004282 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 634503004283 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 634503004284 hypothetical protein; Provisional; Region: PRK05325 634503004285 PrkA family serine protein kinase; Provisional; Region: PRK15455 634503004286 AAA ATPase domain; Region: AAA_16; pfam13191 634503004287 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 634503004288 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 634503004289 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 634503004290 active site 634503004291 phosphate binding residues; other site 634503004292 catalytic residues [active] 634503004293 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 634503004294 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 634503004295 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 634503004296 methionine sulfoxide reductase B; Provisional; Region: PRK00222 634503004297 SelR domain; Region: SelR; pfam01641 634503004298 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 634503004299 Isochorismatase family; Region: Isochorismatase; pfam00857 634503004300 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 634503004301 catalytic triad [active] 634503004302 metal binding site [ion binding]; metal-binding site 634503004303 conserved cis-peptide bond; other site 634503004304 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 634503004305 active site 634503004306 homodimer interface [polypeptide binding]; other site 634503004307 protease 4; Provisional; Region: PRK10949 634503004308 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 634503004309 oligomer interface [polypeptide binding]; other site 634503004310 tandem repeat interface [polypeptide binding]; other site 634503004311 active site residues [active] 634503004312 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 634503004313 tandem repeat interface [polypeptide binding]; other site 634503004314 oligomer interface [polypeptide binding]; other site 634503004315 active site residues [active] 634503004316 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 634503004317 putative FMN binding site [chemical binding]; other site 634503004318 selenophosphate synthetase; Provisional; Region: PRK00943 634503004319 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 634503004320 dimerization interface [polypeptide binding]; other site 634503004321 putative ATP binding site [chemical binding]; other site 634503004322 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 634503004323 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 634503004324 active site residue [active] 634503004325 DNA topoisomerase III; Provisional; Region: PRK07726 634503004326 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 634503004327 active site 634503004328 putative interdomain interaction site [polypeptide binding]; other site 634503004329 putative metal-binding site [ion binding]; other site 634503004330 putative nucleotide binding site [chemical binding]; other site 634503004331 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 634503004332 domain I; other site 634503004333 DNA binding groove [nucleotide binding] 634503004334 phosphate binding site [ion binding]; other site 634503004335 domain II; other site 634503004336 domain III; other site 634503004337 nucleotide binding site [chemical binding]; other site 634503004338 catalytic site [active] 634503004339 domain IV; other site 634503004340 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 634503004341 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 634503004342 active site 634503004343 8-oxo-dGMP binding site [chemical binding]; other site 634503004344 nudix motif; other site 634503004345 metal binding site [ion binding]; metal-binding site 634503004346 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 634503004347 putative catalytic site [active] 634503004348 putative phosphate binding site [ion binding]; other site 634503004349 active site 634503004350 metal binding site A [ion binding]; metal-binding site 634503004351 DNA binding site [nucleotide binding] 634503004352 putative AP binding site [nucleotide binding]; other site 634503004353 putative metal binding site B [ion binding]; other site 634503004354 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 634503004355 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 634503004356 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 634503004357 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 634503004358 putative active site [active] 634503004359 putative substrate binding site [chemical binding]; other site 634503004360 putative cosubstrate binding site; other site 634503004361 catalytic site [active] 634503004362 hypothetical protein; Provisional; Region: PRK01617 634503004363 SEC-C motif; Region: SEC-C; pfam02810 634503004364 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 634503004365 active site 634503004366 response regulator of RpoS; Provisional; Region: PRK10693 634503004367 phosphorylation site [posttranslational modification] 634503004368 intermolecular recognition site; other site 634503004369 dimerization interface [polypeptide binding]; other site 634503004370 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 634503004371 active site 634503004372 tetramer interface; other site 634503004373 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 634503004374 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 634503004375 thymidine kinase; Provisional; Region: PRK04296 634503004376 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 634503004377 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 634503004378 putative catalytic cysteine [active] 634503004379 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 634503004380 putative active site [active] 634503004381 metal binding site [ion binding]; metal-binding site 634503004382 hypothetical protein; Provisional; Region: PRK11111 634503004383 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 634503004384 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 634503004385 peptide binding site [polypeptide binding]; other site 634503004386 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 634503004387 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 634503004388 dimer interface [polypeptide binding]; other site 634503004389 conserved gate region; other site 634503004390 putative PBP binding loops; other site 634503004391 ABC-ATPase subunit interface; other site 634503004392 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 634503004393 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 634503004394 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 634503004395 dimer interface [polypeptide binding]; other site 634503004396 conserved gate region; other site 634503004397 ABC-ATPase subunit interface; other site 634503004398 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 634503004399 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 634503004400 Walker A/P-loop; other site 634503004401 ATP binding site [chemical binding]; other site 634503004402 Q-loop/lid; other site 634503004403 ABC transporter signature motif; other site 634503004404 Walker B; other site 634503004405 D-loop; other site 634503004406 H-loop/switch region; other site 634503004407 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 634503004408 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 634503004409 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 634503004410 Walker A/P-loop; other site 634503004411 ATP binding site [chemical binding]; other site 634503004412 Q-loop/lid; other site 634503004413 ABC transporter signature motif; other site 634503004414 Walker B; other site 634503004415 D-loop; other site 634503004416 H-loop/switch region; other site 634503004417 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 634503004418 dsDNA-mimic protein; Reviewed; Region: PRK05094 634503004419 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 634503004420 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 634503004421 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 634503004422 putative active site [active] 634503004423 catalytic site [active] 634503004424 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 634503004425 putative active site [active] 634503004426 catalytic site [active] 634503004427 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 634503004428 Lysine efflux permease [General function prediction only]; Region: COG1279 634503004429 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 634503004430 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 634503004431 dimerization interface [polypeptide binding]; other site 634503004432 DPS ferroxidase diiron center [ion binding]; other site 634503004433 ion pore; other site 634503004434 Integrase core domain; Region: rve; pfam00665 634503004435 Integrase core domain; Region: rve_3; pfam13683 634503004436 YciI-like protein; Reviewed; Region: PRK11370 634503004437 transport protein TonB; Provisional; Region: PRK10819 634503004438 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634503004439 intracellular septation protein A; Reviewed; Region: PRK00259 634503004440 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 634503004441 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 634503004442 Sulfate transporter family; Region: Sulfate_transp; pfam00916 634503004443 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 634503004444 Domain of unknown function (DUF1919); Region: DUF1919; cl01628 634503004445 hypothetical protein; Provisional; Region: PRK02868 634503004446 outer membrane protein W; Provisional; Region: PRK10959 634503004447 BON domain; Region: BON; pfam04972 634503004448 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 634503004449 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 634503004450 substrate binding site [chemical binding]; other site 634503004451 active site 634503004452 catalytic residues [active] 634503004453 heterodimer interface [polypeptide binding]; other site 634503004454 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 634503004455 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 634503004456 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503004457 catalytic residue [active] 634503004458 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 634503004459 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 634503004460 active site 634503004461 ribulose/triose binding site [chemical binding]; other site 634503004462 phosphate binding site [ion binding]; other site 634503004463 substrate (anthranilate) binding pocket [chemical binding]; other site 634503004464 product (indole) binding pocket [chemical binding]; other site 634503004465 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 634503004466 active site 634503004467 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 634503004468 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 634503004469 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 634503004470 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 634503004471 Glutamine amidotransferase class-I; Region: GATase; pfam00117 634503004472 glutamine binding [chemical binding]; other site 634503004473 catalytic triad [active] 634503004474 anthranilate synthase component I; Provisional; Region: PRK13564 634503004475 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 634503004476 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 634503004477 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 634503004478 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 634503004479 active site 634503004480 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 634503004481 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 634503004482 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 634503004483 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 634503004484 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 634503004485 dimer interface [polypeptide binding]; other site 634503004486 conserved gate region; other site 634503004487 putative PBP binding loops; other site 634503004488 ABC-ATPase subunit interface; other site 634503004489 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 634503004490 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 634503004491 substrate binding pocket [chemical binding]; other site 634503004492 membrane-bound complex binding site; other site 634503004493 hinge residues; other site 634503004494 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 634503004495 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634503004496 DNA polymerase III, theta subunit; Region: DNA_pol3_theta; pfam06440 634503004497 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 634503004498 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 634503004499 RNA binding surface [nucleotide binding]; other site 634503004500 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 634503004501 probable active site [active] 634503004502 cobalamin synthase; Reviewed; Region: cobS; PRK00235 634503004503 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 634503004504 catalytic core [active] 634503004505 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 634503004506 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 634503004507 Walker A motif; other site 634503004508 homodimer interface [polypeptide binding]; other site 634503004509 ATP binding site [chemical binding]; other site 634503004510 hydroxycobalamin binding site [chemical binding]; other site 634503004511 Walker B motif; other site 634503004512 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 634503004513 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634503004514 NAD(P) binding site [chemical binding]; other site 634503004515 active site 634503004516 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 634503004517 putative inner membrane peptidase; Provisional; Region: PRK11778 634503004518 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 634503004519 tandem repeat interface [polypeptide binding]; other site 634503004520 oligomer interface [polypeptide binding]; other site 634503004521 active site residues [active] 634503004522 hypothetical protein; Provisional; Region: PRK11037 634503004523 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 634503004524 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 634503004525 active site 634503004526 interdomain interaction site; other site 634503004527 putative metal-binding site [ion binding]; other site 634503004528 nucleotide binding site [chemical binding]; other site 634503004529 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 634503004530 domain I; other site 634503004531 DNA binding groove [nucleotide binding] 634503004532 phosphate binding site [ion binding]; other site 634503004533 domain II; other site 634503004534 domain III; other site 634503004535 nucleotide binding site [chemical binding]; other site 634503004536 catalytic site [active] 634503004537 domain IV; other site 634503004538 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 634503004539 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 634503004540 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 634503004541 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 634503004542 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503004543 MULE transposase domain; Region: MULE; pfam10551 634503004544 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503004545 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 634503004546 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503004547 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 634503004548 substrate binding site [chemical binding]; other site 634503004549 dimerization interface [polypeptide binding]; other site 634503004550 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 634503004551 DNA-binding site [nucleotide binding]; DNA binding site 634503004552 RNA-binding motif; other site 634503004553 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 634503004554 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 634503004555 S-adenosylmethionine binding site [chemical binding]; other site 634503004556 hypothetical protein; Provisional; Region: PRK02913 634503004557 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 634503004558 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 634503004559 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 634503004560 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 634503004561 active pocket/dimerization site; other site 634503004562 active site 634503004563 phosphorylation site [posttranslational modification] 634503004564 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 634503004565 active site 634503004566 phosphorylation site [posttranslational modification] 634503004567 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 634503004568 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 634503004569 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 634503004570 Transporter associated domain; Region: CorC_HlyC; smart01091 634503004571 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 634503004572 multidrug efflux protein; Reviewed; Region: PRK01766 634503004573 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 634503004574 cation binding site [ion binding]; other site 634503004575 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 634503004576 Lumazine binding domain; Region: Lum_binding; pfam00677 634503004577 Lumazine binding domain; Region: Lum_binding; pfam00677 634503004578 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 634503004579 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 634503004580 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 634503004581 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 634503004582 Bacterial transcriptional regulator; Region: IclR; pfam01614 634503004583 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 634503004584 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 634503004585 inner membrane protein; Provisional; Region: PRK11648 634503004586 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 634503004587 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 634503004588 motif II; other site 634503004589 YniB-like protein; Region: YniB; pfam14002 634503004590 Phosphotransferase enzyme family; Region: APH; pfam01636 634503004591 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 634503004592 active site 634503004593 ATP binding site [chemical binding]; other site 634503004594 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 634503004595 active site 634503004596 ATP binding site [chemical binding]; other site 634503004597 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 634503004598 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 634503004599 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 634503004600 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634503004601 catalytic residue [active] 634503004602 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 634503004603 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 634503004604 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634503004605 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 634503004606 Walker A/P-loop; other site 634503004607 ATP binding site [chemical binding]; other site 634503004608 Q-loop/lid; other site 634503004609 ABC transporter signature motif; other site 634503004610 Walker B; other site 634503004611 D-loop; other site 634503004612 H-loop/switch region; other site 634503004613 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 634503004614 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 634503004615 Walker A/P-loop; other site 634503004616 ATP binding site [chemical binding]; other site 634503004617 Q-loop/lid; other site 634503004618 ABC transporter signature motif; other site 634503004619 Walker B; other site 634503004620 D-loop; other site 634503004621 H-loop/switch region; other site 634503004622 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 634503004623 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 634503004624 putative PBP binding loops; other site 634503004625 ABC-ATPase subunit interface; other site 634503004626 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 634503004627 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 634503004628 dimer interface [polypeptide binding]; other site 634503004629 conserved gate region; other site 634503004630 putative PBP binding loops; other site 634503004631 ABC-ATPase subunit interface; other site 634503004632 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_19; cd08518 634503004633 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 634503004634 Protein of unknown function (DUF805); Region: DUF805; pfam05656 634503004635 penicillin-binding protein 2; Provisional; Region: PRK10795 634503004636 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 634503004637 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 634503004638 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 634503004639 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 634503004640 Ligand Binding Site [chemical binding]; other site 634503004641 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 634503004642 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 634503004643 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 634503004644 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503004645 MULE transposase domain; Region: MULE; pfam10551 634503004646 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 634503004647 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 634503004648 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 634503004649 substrate binding site [chemical binding]; other site 634503004650 ATP binding site [chemical binding]; other site 634503004651 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 634503004652 intersubunit interface [polypeptide binding]; other site 634503004653 active site 634503004654 zinc binding site [ion binding]; other site 634503004655 Na+ binding site [ion binding]; other site 634503004656 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 634503004657 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 634503004658 active site 634503004659 catalytic residues [active] 634503004660 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 634503004661 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 634503004662 putative substrate translocation pore; other site 634503004663 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503004664 MULE transposase domain; Region: MULE; pfam10551 634503004665 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634503004666 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 634503004667 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634503004668 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 634503004669 Transposase; Region: HTH_Tnp_1; cl17663 634503004670 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 634503004671 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 634503004672 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 634503004673 dimer interface [polypeptide binding]; other site 634503004674 PYR/PP interface [polypeptide binding]; other site 634503004675 TPP binding site [chemical binding]; other site 634503004676 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634503004677 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 634503004678 TPP-binding site [chemical binding]; other site 634503004679 dimer interface [polypeptide binding]; other site 634503004680 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 634503004681 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 634503004682 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 634503004683 Domain of unknown function (DUF305); Region: DUF305; cl17794 634503004684 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 634503004685 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634503004686 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634503004687 alpha-galactosidase; Provisional; Region: PRK15076 634503004688 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 634503004689 NAD binding site [chemical binding]; other site 634503004690 sugar binding site [chemical binding]; other site 634503004691 divalent metal binding site [ion binding]; other site 634503004692 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 634503004693 dimer interface [polypeptide binding]; other site 634503004694 Beta/Gamma crystallin; Region: Crystall; cl02528 634503004695 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 634503004696 D-galactonate transporter; Region: 2A0114; TIGR00893 634503004697 putative substrate translocation pore; other site 634503004698 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 634503004699 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 634503004700 active site 1 [active] 634503004701 active site 2 [active] 634503004702 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 634503004703 Ligand Binding Site [chemical binding]; other site 634503004704 hypothetical protein; Provisional; Region: PRK10410 634503004705 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 634503004706 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 634503004707 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 634503004708 mce related protein; Region: MCE; pfam02470 634503004709 mce related protein; Region: MCE; pfam02470 634503004710 mce related protein; Region: MCE; pfam02470 634503004711 mce related protein; Region: MCE; pfam02470 634503004712 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 634503004713 mce related protein; Region: MCE; pfam02470 634503004714 mce related protein; Region: MCE; pfam02470 634503004715 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 634503004716 Paraquat-inducible protein A; Region: PqiA; pfam04403 634503004717 Paraquat-inducible protein A; Region: PqiA; pfam04403 634503004718 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 634503004719 GAF domain; Region: GAF_2; pfam13185 634503004720 ProP expression regulator; Provisional; Region: PRK04950 634503004721 ProQ/FINO family; Region: ProQ; pfam04352 634503004722 putative RNA binding sites [nucleotide binding]; other site 634503004723 carboxy-terminal protease; Provisional; Region: PRK11186 634503004724 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 634503004725 protein binding site [polypeptide binding]; other site 634503004726 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 634503004727 Catalytic dyad [active] 634503004728 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 634503004729 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 634503004730 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 634503004731 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 634503004732 putative active site [active] 634503004733 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 634503004734 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 634503004735 NADP binding site [chemical binding]; other site 634503004736 homodimer interface [polypeptide binding]; other site 634503004737 active site 634503004738 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 634503004739 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 634503004740 dimer interface [polypeptide binding]; other site 634503004741 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 634503004742 nucleotide binding site/active site [active] 634503004743 HIT family signature motif; other site 634503004744 catalytic residue [active] 634503004745 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 634503004746 putative dimer interface [polypeptide binding]; other site 634503004747 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 634503004748 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 634503004749 substrate binding site [chemical binding]; other site 634503004750 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 634503004751 beta-hexosaminidase; Provisional; Region: PRK05337 634503004752 hypothetical protein; Provisional; Region: PRK04940 634503004753 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 634503004754 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 634503004755 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 634503004756 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 634503004757 dimer interface [polypeptide binding]; other site 634503004758 conserved gate region; other site 634503004759 putative PBP binding loops; other site 634503004760 ABC-ATPase subunit interface; other site 634503004761 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 634503004762 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 634503004763 dimer interface [polypeptide binding]; other site 634503004764 conserved gate region; other site 634503004765 putative PBP binding loops; other site 634503004766 ABC-ATPase subunit interface; other site 634503004767 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 634503004768 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 634503004769 Walker A/P-loop; other site 634503004770 ATP binding site [chemical binding]; other site 634503004771 Q-loop/lid; other site 634503004772 ABC transporter signature motif; other site 634503004773 Walker B; other site 634503004774 D-loop; other site 634503004775 H-loop/switch region; other site 634503004776 TOBE domain; Region: TOBE_2; pfam08402 634503004777 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 634503004778 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 634503004779 metal binding site [ion binding]; metal-binding site 634503004780 dimer interface [polypeptide binding]; other site 634503004781 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 634503004782 exoribonuclease II; Provisional; Region: PRK05054 634503004783 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 634503004784 RNB domain; Region: RNB; pfam00773 634503004785 S1 RNA binding domain; Region: S1; pfam00575 634503004786 AMP nucleosidase; Provisional; Region: PRK08292 634503004787 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 634503004788 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 634503004789 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 634503004790 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 634503004791 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 634503004792 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 634503004793 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 634503004794 Mechanosensitive ion channel; Region: MS_channel; pfam00924 634503004795 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 634503004796 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 634503004797 Walker A/P-loop; other site 634503004798 ATP binding site [chemical binding]; other site 634503004799 Q-loop/lid; other site 634503004800 ABC transporter signature motif; other site 634503004801 Walker B; other site 634503004802 D-loop; other site 634503004803 H-loop/switch region; other site 634503004804 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 634503004805 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 634503004806 Walker A/P-loop; other site 634503004807 ATP binding site [chemical binding]; other site 634503004808 Q-loop/lid; other site 634503004809 ABC transporter signature motif; other site 634503004810 Walker B; other site 634503004811 D-loop; other site 634503004812 H-loop/switch region; other site 634503004813 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 634503004814 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 634503004815 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 634503004816 dimer interface [polypeptide binding]; other site 634503004817 conserved gate region; other site 634503004818 putative PBP binding loops; other site 634503004819 ABC-ATPase subunit interface; other site 634503004820 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 634503004821 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 634503004822 dimer interface [polypeptide binding]; other site 634503004823 conserved gate region; other site 634503004824 putative PBP binding loops; other site 634503004825 ABC-ATPase subunit interface; other site 634503004826 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 634503004827 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 634503004828 peptide binding site [polypeptide binding]; other site 634503004829 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 634503004830 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 634503004831 Walker A motif; other site 634503004832 ATP binding site [chemical binding]; other site 634503004833 Walker B motif; other site 634503004834 arginine finger; other site 634503004835 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 634503004836 phage shock protein PspA; Provisional; Region: PRK10698 634503004837 phage shock protein B; Provisional; Region: pspB; PRK09458 634503004838 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 634503004839 phage shock protein C; Region: phageshock_pspC; TIGR02978 634503004840 Phage shock protein PspD (Phageshock_PspD); Region: Phageshock_PspD; cl11512 634503004841 Predicted ATPase [General function prediction only]; Region: COG3106 634503004842 hypothetical protein; Provisional; Region: PRK05415 634503004843 Domain of unknown function (DUF697); Region: DUF697; cl12064 634503004844 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 634503004845 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 634503004846 active site residue [active] 634503004847 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 634503004848 active site residue [active] 634503004849 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 634503004850 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 634503004851 putative aromatic amino acid binding site; other site 634503004852 PAS domain; Region: PAS; smart00091 634503004853 putative active site [active] 634503004854 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 634503004855 Walker A motif; other site 634503004856 ATP binding site [chemical binding]; other site 634503004857 Walker B motif; other site 634503004858 arginine finger; other site 634503004859 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 634503004860 dimer interface [polypeptide binding]; other site 634503004861 catalytic triad [active] 634503004862 peroxidatic and resolving cysteines [active] 634503004863 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 634503004864 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 634503004865 peptide binding site [polypeptide binding]; other site 634503004866 L,D-transpeptidase; Provisional; Region: PRK10190 634503004867 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 634503004868 murein lipoprotein; Provisional; Region: PRK15396 634503004869 pyruvate kinase; Provisional; Region: PRK09206 634503004870 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 634503004871 domain interfaces; other site 634503004872 active site 634503004873 threonine-phosphate decarboxylase; Provisional; Region: PRK08056 634503004874 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 634503004875 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503004876 homodimer interface [polypeptide binding]; other site 634503004877 catalytic residue [active] 634503004878 cobyric acid synthase; Provisional; Region: PRK00784 634503004879 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 634503004880 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 634503004881 catalytic triad [active] 634503004882 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 634503004883 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 634503004884 putative dimer interface [polypeptide binding]; other site 634503004885 active site pocket [active] 634503004886 putative cataytic base [active] 634503004887 thiosulfate reductase PhsA; Provisional; Region: PRK15488 634503004888 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 634503004889 putative [Fe4-S4] binding site [ion binding]; other site 634503004890 putative molybdopterin cofactor binding site [chemical binding]; other site 634503004891 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 634503004892 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 634503004893 putative molybdopterin cofactor binding site; other site 634503004894 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 634503004895 4Fe-4S binding domain; Region: Fer4; cl02805 634503004896 thiosulfate reductase cytochrome B subunit; Provisional; Region: PRK15006 634503004897 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 634503004898 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 634503004899 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 634503004900 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 634503004901 putative active site [active] 634503004902 putative CoA binding site [chemical binding]; other site 634503004903 nudix motif; other site 634503004904 metal binding site [ion binding]; metal-binding site 634503004905 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 634503004906 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 634503004907 chorismate binding enzyme; Region: Chorismate_bind; cl10555 634503004908 hypothetical protein; Provisional; Region: PRK05114 634503004909 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 634503004910 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634503004911 ATP-grasp domain; Region: ATP-grasp; pfam02222 634503004912 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 634503004913 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 634503004914 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 634503004915 S-adenosylmethionine binding site [chemical binding]; other site 634503004916 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 634503004917 DNA-binding site [nucleotide binding]; DNA binding site 634503004918 RNA-binding motif; other site 634503004919 YebG protein; Region: YebG; pfam07130 634503004920 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 634503004921 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 634503004922 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634503004923 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 634503004924 protease 2; Provisional; Region: PRK10115 634503004925 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 634503004926 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 634503004927 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 634503004928 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 634503004929 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 634503004930 trimer interface [polypeptide binding]; other site 634503004931 eyelet of channel; other site 634503004932 Protein of unknown function (DUF4060); Region: DUF4060; pfam13269 634503004933 6-phosphofructokinase 2; Provisional; Region: PRK10294 634503004934 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 634503004935 putative substrate binding site [chemical binding]; other site 634503004936 putative ATP binding site [chemical binding]; other site 634503004937 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 634503004938 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 634503004939 dimerization interface [polypeptide binding]; other site 634503004940 DPS ferroxidase diiron center [ion binding]; other site 634503004941 ion pore; other site 634503004942 YobH-like protein; Region: YobH; pfam13996 634503004943 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 634503004944 BCCT family transporter; Region: BCCT; cl00569 634503004945 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 634503004946 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 634503004947 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 634503004948 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 634503004949 active site 634503004950 dimer interface [polypeptide binding]; other site 634503004951 motif 1; other site 634503004952 motif 2; other site 634503004953 motif 3; other site 634503004954 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 634503004955 anticodon binding site; other site 634503004956 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 634503004957 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 634503004958 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 634503004959 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 634503004960 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 634503004961 23S rRNA binding site [nucleotide binding]; other site 634503004962 L21 binding site [polypeptide binding]; other site 634503004963 L13 binding site [polypeptide binding]; other site 634503004964 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 634503004965 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 634503004966 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 634503004967 dimer interface [polypeptide binding]; other site 634503004968 motif 1; other site 634503004969 active site 634503004970 motif 2; other site 634503004971 motif 3; other site 634503004972 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 634503004973 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 634503004974 putative tRNA-binding site [nucleotide binding]; other site 634503004975 B3/4 domain; Region: B3_4; pfam03483 634503004976 tRNA synthetase B5 domain; Region: B5; smart00874 634503004977 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 634503004978 dimer interface [polypeptide binding]; other site 634503004979 motif 1; other site 634503004980 motif 3; other site 634503004981 motif 2; other site 634503004982 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 634503004983 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 634503004984 IHF - DNA interface [nucleotide binding]; other site 634503004985 IHF dimer interface [polypeptide binding]; other site 634503004986 hypothetical protein; Provisional; Region: PRK10708 634503004987 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 634503004988 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 634503004989 ABC-ATPase subunit interface; other site 634503004990 dimer interface [polypeptide binding]; other site 634503004991 putative PBP binding regions; other site 634503004992 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 634503004993 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 634503004994 Walker A/P-loop; other site 634503004995 ATP binding site [chemical binding]; other site 634503004996 Q-loop/lid; other site 634503004997 ABC transporter signature motif; other site 634503004998 Walker B; other site 634503004999 D-loop; other site 634503005000 H-loop/switch region; other site 634503005001 hypothetical protein; Provisional; Region: PRK07206 634503005002 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 634503005003 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 634503005004 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634503005005 active site 634503005006 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 634503005007 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 634503005008 dimer interface [polypeptide binding]; other site 634503005009 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503005010 catalytic residue [active] 634503005011 NlpC/P60 family; Region: NLPC_P60; pfam00877 634503005012 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 634503005013 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 634503005014 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 634503005015 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 634503005016 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 634503005017 substrate binding site [chemical binding]; other site 634503005018 ATP binding site [chemical binding]; other site 634503005019 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 634503005020 Na binding site [ion binding]; other site 634503005021 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 634503005022 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 634503005023 Walker A/P-loop; other site 634503005024 ATP binding site [chemical binding]; other site 634503005025 Q-loop/lid; other site 634503005026 ABC transporter signature motif; other site 634503005027 Walker B; other site 634503005028 D-loop; other site 634503005029 H-loop/switch region; other site 634503005030 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 634503005031 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 634503005032 ABC-ATPase subunit interface; other site 634503005033 dimer interface [polypeptide binding]; other site 634503005034 putative PBP binding regions; other site 634503005035 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 634503005036 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 634503005037 putative hemin binding site; other site 634503005038 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 634503005039 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 634503005040 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 634503005041 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 634503005042 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 634503005043 N-terminal plug; other site 634503005044 ligand-binding site [chemical binding]; other site 634503005045 Hemin uptake protein hemP; Region: hemP; pfam10636 634503005046 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634503005047 NADH(P)-binding; Region: NAD_binding_10; pfam13460 634503005048 NAD(P) binding site [chemical binding]; other site 634503005049 active site 634503005050 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 634503005051 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 634503005052 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 634503005053 FeS/SAM binding site; other site 634503005054 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 634503005055 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 634503005056 PEP synthetase regulatory protein; Provisional; Region: PRK05339 634503005057 phosphoenolpyruvate synthase; Validated; Region: PRK06464 634503005058 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 634503005059 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 634503005060 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 634503005061 putative inner membrane protein; Provisional; Region: PRK10983 634503005062 Domain of unknown function DUF20; Region: UPF0118; pfam01594 634503005063 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 634503005064 FAD binding domain; Region: FAD_binding_4; pfam01565 634503005065 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 634503005066 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 634503005067 CoenzymeA binding site [chemical binding]; other site 634503005068 subunit interaction site [polypeptide binding]; other site 634503005069 PHB binding site; other site 634503005070 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 634503005071 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 634503005072 Cl binding site [ion binding]; other site 634503005073 oligomer interface [polypeptide binding]; other site 634503005074 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 634503005075 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 634503005076 Ligand Binding Site [chemical binding]; other site 634503005077 DoxX-like family; Region: DoxX_2; pfam13564 634503005078 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 634503005079 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 634503005080 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634503005081 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634503005082 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 634503005083 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 634503005084 dimer interface [polypeptide binding]; other site 634503005085 PYR/PP interface [polypeptide binding]; other site 634503005086 TPP binding site [chemical binding]; other site 634503005087 substrate binding site [chemical binding]; other site 634503005088 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 634503005089 Domain of unknown function; Region: EKR; pfam10371 634503005090 4Fe-4S binding domain; Region: Fer4_6; pfam12837 634503005091 4Fe-4S binding domain; Region: Fer4; pfam00037 634503005092 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 634503005093 TPP-binding site [chemical binding]; other site 634503005094 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 634503005095 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 634503005096 MgtC family; Region: MgtC; pfam02308 634503005097 Domain of unknown function (DUF333); Region: DUF333; pfam03891 634503005098 META domain; Region: META; cl01245 634503005099 Glycogen synthesis protein; Region: GlgS; cl11663 634503005100 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 634503005101 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 634503005102 putative ligand binding site [chemical binding]; other site 634503005103 putative NAD binding site [chemical binding]; other site 634503005104 catalytic site [active] 634503005105 hypothetical protein; Provisional; Region: PRK10695 634503005106 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 634503005107 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 634503005108 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 634503005109 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 634503005110 ATP binding site [chemical binding]; other site 634503005111 putative Mg++ binding site [ion binding]; other site 634503005112 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 634503005113 nucleotide binding region [chemical binding]; other site 634503005114 ATP-binding site [chemical binding]; other site 634503005115 Helicase associated domain (HA2); Region: HA2; pfam04408 634503005116 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 634503005117 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 634503005118 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 634503005119 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 634503005120 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 634503005121 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 634503005122 catalytic core [active] 634503005123 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 634503005124 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 634503005125 type III effector phosphothreonine lyase; Provisional; Region: PRK15245 634503005126 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 634503005127 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 634503005128 active site 634503005129 Zn binding site [ion binding]; other site 634503005130 sensor protein RstB; Provisional; Region: PRK10604 634503005131 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 634503005132 dimerization interface [polypeptide binding]; other site 634503005133 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 634503005134 dimer interface [polypeptide binding]; other site 634503005135 phosphorylation site [posttranslational modification] 634503005136 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 634503005137 ATP binding site [chemical binding]; other site 634503005138 Mg2+ binding site [ion binding]; other site 634503005139 G-X-G motif; other site 634503005140 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 634503005141 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 634503005142 active site 634503005143 phosphorylation site [posttranslational modification] 634503005144 intermolecular recognition site; other site 634503005145 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 634503005146 DNA binding site [nucleotide binding] 634503005147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634503005148 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503005149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634503005150 NAD(P) binding site [chemical binding]; other site 634503005151 active site 634503005152 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 634503005153 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 634503005154 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 634503005155 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 634503005156 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 634503005157 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 634503005158 ligand binding site [chemical binding]; other site 634503005159 homodimer interface [polypeptide binding]; other site 634503005160 NAD(P) binding site [chemical binding]; other site 634503005161 trimer interface B [polypeptide binding]; other site 634503005162 trimer interface A [polypeptide binding]; other site 634503005163 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 634503005164 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 634503005165 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 634503005166 universal stress protein UspE; Provisional; Region: PRK11175 634503005167 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 634503005168 Ligand Binding Site [chemical binding]; other site 634503005169 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 634503005170 Ligand Binding Site [chemical binding]; other site 634503005171 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 634503005172 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 634503005173 ligand binding site [chemical binding]; other site 634503005174 flexible hinge region; other site 634503005175 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 634503005176 putative switch regulator; other site 634503005177 non-specific DNA interactions [nucleotide binding]; other site 634503005178 DNA binding site [nucleotide binding] 634503005179 sequence specific DNA binding site [nucleotide binding]; other site 634503005180 putative cAMP binding site [chemical binding]; other site 634503005181 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 634503005182 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 634503005183 Peptidase family U32; Region: Peptidase_U32; pfam01136 634503005184 Collagenase; Region: DUF3656; pfam12392 634503005185 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 634503005186 hypothetical protein; Provisional; Region: PRK09981 634503005187 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 634503005188 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634503005189 Cache domain; Region: Cache_1; pfam02743 634503005190 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 634503005191 dimerization interface [polypeptide binding]; other site 634503005192 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 634503005193 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 634503005194 dimer interface [polypeptide binding]; other site 634503005195 putative CheW interface [polypeptide binding]; other site 634503005196 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 634503005197 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 634503005198 dimerization interface [polypeptide binding]; other site 634503005199 putative DNA binding site [nucleotide binding]; other site 634503005200 putative Zn2+ binding site [ion binding]; other site 634503005201 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 634503005202 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 634503005203 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 634503005204 DDE superfamily endonuclease; Region: DDE_3; pfam13358 634503005205 Homeodomain-like domain; Region: HTH_23; pfam13384 634503005206 Winged helix-turn helix; Region: HTH_29; pfam13551 634503005207 Peptidase family C69; Region: Peptidase_C69; cl17793 634503005208 Peptidase family C69; Region: Peptidase_C69; cl17793 634503005209 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 634503005210 Ligand Binding Site [chemical binding]; other site 634503005211 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503005212 malonic semialdehyde reductase; Provisional; Region: PRK10538 634503005213 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634503005214 NAD(P) binding site [chemical binding]; other site 634503005215 active site 634503005216 hypothetical protein; Provisional; Region: PRK13659 634503005217 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 634503005218 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 634503005219 putative substrate translocation pore; other site 634503005220 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 634503005221 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 634503005222 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503005223 MULE transposase domain; Region: MULE; pfam10551 634503005224 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634503005225 active site 634503005226 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503005227 MULE transposase domain; Region: MULE; pfam10551 634503005228 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 634503005229 Fibronectin type III protein; Region: DUF3672; pfam12421 634503005230 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 634503005231 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 634503005232 primosomal protein DnaI; Provisional; Region: PRK02854 634503005233 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 634503005234 large terminase protein; Provisional; Region: 17; PHA02533 634503005235 large terminase protein; Provisional; Region: 17; PHA02533 634503005236 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 634503005237 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 634503005238 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 634503005239 Phage holin family (Lysis protein S); Region: Phage_holin_3; pfam05106 634503005240 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 634503005241 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 634503005242 uncharacterized phage protein; Region: phage_xxxx; TIGR02642 634503005243 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 634503005244 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 634503005245 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 634503005246 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 634503005247 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 634503005248 salt bridge; other site 634503005249 non-specific DNA binding site [nucleotide binding]; other site 634503005250 sequence-specific DNA binding site [nucleotide binding]; other site 634503005251 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 634503005252 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 634503005253 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 634503005254 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 634503005255 replicative DNA helicase; Region: DnaB; TIGR00665 634503005256 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 634503005257 Walker A motif; other site 634503005258 ATP binding site [chemical binding]; other site 634503005259 Walker B motif; other site 634503005260 DNA binding loops [nucleotide binding] 634503005261 Helix-turn-helix domain; Region: HTH_36; pfam13730 634503005262 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 634503005263 Predicted transcriptional regulator [Transcription]; Region: COG2932 634503005264 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 634503005265 Catalytic site [active] 634503005266 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 634503005267 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 634503005268 Enterobacterial exodeoxyribonuclease VIII; Region: Exonuc_VIII; pfam06630 634503005269 RecT family; Region: RecT; pfam03837 634503005270 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 634503005271 Beta/Gamma crystallin; Region: Crystall; cl02528 634503005272 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503005273 Enterobacterial exodeoxyribonuclease VIII; Region: Exonuc_VIII; pfam06630 634503005274 Excisionase-like protein; Region: Exc; pfam07825 634503005275 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 634503005276 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 634503005277 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 634503005278 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 634503005279 active site 634503005280 DNA binding site [nucleotide binding] 634503005281 Int/Topo IB signature motif; other site 634503005282 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503005283 MULE transposase domain; Region: MULE; pfam10551 634503005284 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 634503005285 Urea transporter; Region: UT; cl01829 634503005286 UreD urease accessory protein; Region: UreD; pfam01774 634503005287 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 634503005288 G1 box; other site 634503005289 GTP/Mg2+ binding site [chemical binding]; other site 634503005290 G2 box; other site 634503005291 Switch I region; other site 634503005292 Switch II region; other site 634503005293 G4 box; other site 634503005294 G5 box; other site 634503005295 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 634503005296 UreF; Region: UreF; pfam01730 634503005297 urease accessory protein UreE; Provisional; Region: ureE; PRK14711 634503005298 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 634503005299 dimer interface [polypeptide binding]; other site 634503005300 catalytic residues [active] 634503005301 urease subunit alpha; Reviewed; Region: ureC; PRK13309 634503005302 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 634503005303 subunit interactions [polypeptide binding]; other site 634503005304 active site 634503005305 flap region; other site 634503005306 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 634503005307 alpha-beta subunit interface [polypeptide binding]; other site 634503005308 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 634503005309 alpha-gamma subunit interface [polypeptide binding]; other site 634503005310 beta-gamma subunit interface [polypeptide binding]; other site 634503005311 Transposase; Region: HTH_Tnp_1; cl17663 634503005312 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503005313 MULE transposase domain; Region: MULE; pfam10551 634503005314 Haem-binding domain; Region: Haem_bd; pfam14376 634503005315 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 634503005316 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 634503005317 AAA domain; Region: AAA_26; pfam13500 634503005318 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 634503005319 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 634503005320 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 634503005321 nucleotide binding site [chemical binding]; other site 634503005322 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634503005323 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503005324 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 634503005325 dimerization interface [polypeptide binding]; other site 634503005326 substrate binding pocket [chemical binding]; other site 634503005327 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 634503005328 putative substrate translocation pore; other site 634503005329 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 634503005330 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 634503005331 fumarate hydratase; Reviewed; Region: fumC; PRK00485 634503005332 Class II fumarases; Region: Fumarase_classII; cd01362 634503005333 active site 634503005334 tetramer interface [polypeptide binding]; other site 634503005335 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 634503005336 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 634503005337 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 634503005338 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 634503005339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 634503005340 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 634503005341 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 634503005342 active site 634503005343 purine riboside binding site [chemical binding]; other site 634503005344 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 634503005345 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 634503005346 formate--tetrahydrofolate ligase; Provisional; Region: PRK13506 634503005347 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 634503005348 Potassium binding sites [ion binding]; other site 634503005349 Cesium cation binding sites [ion binding]; other site 634503005350 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 634503005351 electron transport complex protein RsxA; Provisional; Region: PRK05151 634503005352 electron transport complex protein RnfB; Provisional; Region: PRK05113 634503005353 Putative Fe-S cluster; Region: FeS; pfam04060 634503005354 4Fe-4S binding domain; Region: Fer4; pfam00037 634503005355 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 634503005356 SLBB domain; Region: SLBB; pfam10531 634503005357 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 634503005358 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 634503005359 electron transport complex protein RnfG; Validated; Region: PRK01908 634503005360 electron transport complex RsxE subunit; Provisional; Region: PRK12405 634503005361 endonuclease III; Provisional; Region: PRK10702 634503005362 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 634503005363 minor groove reading motif; other site 634503005364 helix-hairpin-helix signature motif; other site 634503005365 substrate binding pocket [chemical binding]; other site 634503005366 active site 634503005367 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 634503005368 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 634503005369 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 634503005370 putative substrate translocation pore; other site 634503005371 POT family; Region: PTR2; pfam00854 634503005372 glutathionine S-transferase; Provisional; Region: PRK10542 634503005373 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 634503005374 C-terminal domain interface [polypeptide binding]; other site 634503005375 GSH binding site (G-site) [chemical binding]; other site 634503005376 dimer interface [polypeptide binding]; other site 634503005377 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 634503005378 dimer interface [polypeptide binding]; other site 634503005379 N-terminal domain interface [polypeptide binding]; other site 634503005380 substrate binding pocket (H-site) [chemical binding]; other site 634503005381 pyridoxamine kinase; Validated; Region: PRK05756 634503005382 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 634503005383 dimer interface [polypeptide binding]; other site 634503005384 pyridoxal binding site [chemical binding]; other site 634503005385 ATP binding site [chemical binding]; other site 634503005386 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 634503005387 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 634503005388 active site 634503005389 HIGH motif; other site 634503005390 dimer interface [polypeptide binding]; other site 634503005391 KMSKS motif; other site 634503005392 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 634503005393 RNA binding surface [nucleotide binding]; other site 634503005394 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 634503005395 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 634503005396 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 634503005397 lysozyme inhibitor; Provisional; Region: PRK11372 634503005398 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 634503005399 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 634503005400 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 634503005401 transcriptional regulator SlyA; Provisional; Region: PRK03573 634503005402 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 634503005403 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 634503005404 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 634503005405 dimer interface [polypeptide binding]; other site 634503005406 active site 634503005407 metal binding site [ion binding]; metal-binding site 634503005408 glutathione binding site [chemical binding]; other site 634503005409 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 634503005410 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 634503005411 dimer interface [polypeptide binding]; other site 634503005412 catalytic site [active] 634503005413 putative active site [active] 634503005414 putative substrate binding site [chemical binding]; other site 634503005415 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 634503005416 Predicted permease [General function prediction only]; Region: COG2056 634503005417 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 634503005418 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 634503005419 putative GSH binding site [chemical binding]; other site 634503005420 catalytic residues [active] 634503005421 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 634503005422 NlpC/P60 family; Region: NLPC_P60; pfam00877 634503005423 superoxide dismutase; Provisional; Region: PRK10543 634503005424 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 634503005425 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 634503005426 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 634503005427 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 634503005428 DNA binding site [nucleotide binding] 634503005429 domain linker motif; other site 634503005430 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 634503005431 dimerization interface [polypeptide binding]; other site 634503005432 ligand binding site [chemical binding]; other site 634503005433 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 634503005434 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 634503005435 putative PBP binding loops; other site 634503005436 ABC-ATPase subunit interface; other site 634503005437 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 634503005438 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634503005439 Walker A/P-loop; other site 634503005440 ATP binding site [chemical binding]; other site 634503005441 Q-loop/lid; other site 634503005442 ABC transporter signature motif; other site 634503005443 Walker B; other site 634503005444 D-loop; other site 634503005445 H-loop/switch region; other site 634503005446 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 634503005447 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503005448 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 634503005449 dimerization interface [polypeptide binding]; other site 634503005450 putative transporter; Provisional; Region: PRK11043 634503005451 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 634503005452 putative substrate translocation pore; other site 634503005453 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 634503005454 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 634503005455 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 634503005456 HlyD family secretion protein; Region: HlyD_3; pfam13437 634503005457 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 634503005458 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 634503005459 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 634503005460 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 634503005461 active site 634503005462 phosphorylation site [posttranslational modification] 634503005463 intermolecular recognition site; other site 634503005464 dimerization interface [polypeptide binding]; other site 634503005465 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 634503005466 DNA binding site [nucleotide binding] 634503005467 sensor kinase CusS; Provisional; Region: PRK09835 634503005468 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 634503005469 dimerization interface [polypeptide binding]; other site 634503005470 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 634503005471 dimer interface [polypeptide binding]; other site 634503005472 phosphorylation site [posttranslational modification] 634503005473 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 634503005474 ATP binding site [chemical binding]; other site 634503005475 Mg2+ binding site [ion binding]; other site 634503005476 G-X-G motif; other site 634503005477 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 634503005478 Na binding site [ion binding]; other site 634503005479 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 634503005480 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 634503005481 Predicted transcriptional regulator [Transcription]; Region: COG3905 634503005482 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 634503005483 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 634503005484 Glutamate binding site [chemical binding]; other site 634503005485 NAD binding site [chemical binding]; other site 634503005486 catalytic residues [active] 634503005487 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503005488 heat shock protein HtpX; Provisional; Region: PRK05457 634503005489 alpha-amylase; Reviewed; Region: malS; PRK09505 634503005490 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 634503005491 active site 634503005492 catalytic site [active] 634503005493 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 634503005494 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 634503005495 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 634503005496 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 634503005497 substrate binding site [chemical binding]; other site 634503005498 ATP binding site [chemical binding]; other site 634503005499 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 634503005500 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 634503005501 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 634503005502 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 634503005503 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 634503005504 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 634503005505 TM-ABC transporter signature motif; other site 634503005506 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 634503005507 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 634503005508 Walker A/P-loop; other site 634503005509 ATP binding site [chemical binding]; other site 634503005510 Q-loop/lid; other site 634503005511 ABC transporter signature motif; other site 634503005512 Walker B; other site 634503005513 D-loop; other site 634503005514 H-loop/switch region; other site 634503005515 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 634503005516 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 634503005517 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 634503005518 ligand binding site [chemical binding]; other site 634503005519 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 634503005520 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 634503005521 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 634503005522 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 634503005523 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 634503005524 PYR/PP interface [polypeptide binding]; other site 634503005525 dimer interface [polypeptide binding]; other site 634503005526 TPP binding site [chemical binding]; other site 634503005527 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634503005528 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 634503005529 TPP-binding site; other site 634503005530 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 634503005531 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 634503005532 tetrameric interface [polypeptide binding]; other site 634503005533 NAD binding site [chemical binding]; other site 634503005534 catalytic residues [active] 634503005535 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503005536 MULE transposase domain; Region: MULE; pfam10551 634503005537 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634503005538 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 634503005539 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 634503005540 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503005541 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 634503005542 putative dimerization interface [polypeptide binding]; other site 634503005543 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 634503005544 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 634503005545 inhibitor site; inhibition site 634503005546 active site 634503005547 dimer interface [polypeptide binding]; other site 634503005548 catalytic residue [active] 634503005549 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 634503005550 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 634503005551 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 634503005552 tetramer interface [polypeptide binding]; other site 634503005553 active site 634503005554 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 634503005555 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 634503005556 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634503005557 catalytic residue [active] 634503005558 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 634503005559 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 634503005560 YadA-like C-terminal region; Region: YadA; pfam03895 634503005561 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 634503005562 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 634503005563 HlyD family secretion protein; Region: HlyD_3; pfam13437 634503005564 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 634503005565 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 634503005566 putative active site [active] 634503005567 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634503005568 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634503005569 Walker A/P-loop; other site 634503005570 ATP binding site [chemical binding]; other site 634503005571 Q-loop/lid; other site 634503005572 ABC transporter signature motif; other site 634503005573 Walker B; other site 634503005574 D-loop; other site 634503005575 H-loop/switch region; other site 634503005576 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 634503005577 active site 634503005578 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 634503005579 active site 634503005580 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 634503005581 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634503005582 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503005583 MULE transposase domain; Region: MULE; pfam10551 634503005584 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 634503005585 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634503005586 Coenzyme A binding pocket [chemical binding]; other site 634503005587 CoA-binding domain; Region: CoA_binding_3; pfam13727 634503005588 Mig-14; Region: Mig-14; pfam07395 634503005589 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 634503005590 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 634503005591 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 634503005592 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 634503005593 CoA-transferase family III; Region: CoA_transf_3; pfam02515 634503005594 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 634503005595 active site 634503005596 catalytic residues [active] 634503005597 metal binding site [ion binding]; metal-binding site 634503005598 3-isopropylmalate dehydratase large subunit [Amino acid transport and metabolism]; Region: LeuC; COG0065 634503005599 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 634503005600 substrate binding site [chemical binding]; other site 634503005601 ligand binding site [chemical binding]; other site 634503005602 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 634503005603 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 634503005604 substrate binding site [chemical binding]; other site 634503005605 PrpF protein; Region: PrpF; pfam04303 634503005606 Propionate catabolism activator; Region: PrpR_N; pfam06506 634503005607 PAS domain; Region: PAS; smart00091 634503005608 PAS domain; Region: PAS_9; pfam13426 634503005609 putative active site [active] 634503005610 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 634503005611 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 634503005612 Walker A motif; other site 634503005613 ATP binding site [chemical binding]; other site 634503005614 Walker B motif; other site 634503005615 arginine finger; other site 634503005616 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 634503005617 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 634503005618 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 634503005619 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 634503005620 homotrimer interface [polypeptide binding]; other site 634503005621 Walker A motif; other site 634503005622 GTP binding site [chemical binding]; other site 634503005623 Walker B motif; other site 634503005624 cobyric acid synthase; Provisional; Region: PRK00784 634503005625 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 634503005626 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 634503005627 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 634503005628 catalytic triad [active] 634503005629 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13638 634503005630 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 634503005631 active site 634503005632 SAM binding site [chemical binding]; other site 634503005633 homodimer interface [polypeptide binding]; other site 634503005634 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 634503005635 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 634503005636 active site 634503005637 C-terminal domain interface [polypeptide binding]; other site 634503005638 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 634503005639 active site 634503005640 N-terminal domain interface [polypeptide binding]; other site 634503005641 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 634503005642 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 634503005643 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 634503005644 active site 634503005645 SAM binding site [chemical binding]; other site 634503005646 homodimer interface [polypeptide binding]; other site 634503005647 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 634503005648 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 634503005649 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 634503005650 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 634503005651 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 634503005652 active site 634503005653 SAM binding site [chemical binding]; other site 634503005654 homodimer interface [polypeptide binding]; other site 634503005655 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 634503005656 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 634503005657 S-adenosylmethionine binding site [chemical binding]; other site 634503005658 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 634503005659 active site 634503005660 putative homodimer interface [polypeptide binding]; other site 634503005661 SAM binding site [chemical binding]; other site 634503005662 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 634503005663 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; PRK08286 634503005664 Precorrin-8X methylmutase; Region: CbiC; pfam02570 634503005665 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 634503005666 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 634503005667 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 634503005668 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 634503005669 catalytic triad [active] 634503005670 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 634503005671 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503005672 sensory histidine kinase AtoS; Provisional; Region: PRK11360 634503005673 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 634503005674 putative active site [active] 634503005675 heme pocket [chemical binding]; other site 634503005676 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 634503005677 dimer interface [polypeptide binding]; other site 634503005678 phosphorylation site [posttranslational modification] 634503005679 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 634503005680 ATP binding site [chemical binding]; other site 634503005681 Mg2+ binding site [ion binding]; other site 634503005682 G-X-G motif; other site 634503005683 acetoacetate metabolism regulatory protein AtoC; Provisional; Region: PRK11361 634503005684 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 634503005685 active site 634503005686 phosphorylation site [posttranslational modification] 634503005687 intermolecular recognition site; other site 634503005688 dimerization interface [polypeptide binding]; other site 634503005689 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 634503005690 Walker A motif; other site 634503005691 ATP binding site [chemical binding]; other site 634503005692 Walker B motif; other site 634503005693 arginine finger; other site 634503005694 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 634503005695 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional; Region: PRK09920 634503005696 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 634503005697 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 634503005698 putative acyltransferase; Provisional; Region: PRK05790 634503005699 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 634503005700 dimer interface [polypeptide binding]; other site 634503005701 active site 634503005702 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 634503005703 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 634503005704 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 634503005705 Transposase IS200 like; Region: Y1_Tnp; pfam01797 634503005706 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 634503005707 Integrase core domain; Region: rve_3; cl15866 634503005708 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 634503005709 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 634503005710 amidase catalytic site [active] 634503005711 Zn binding residues [ion binding]; other site 634503005712 substrate binding site [chemical binding]; other site 634503005713 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 634503005714 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 634503005715 Major Facilitator Superfamily; Region: MFS_1; pfam07690 634503005716 putative substrate translocation pore; other site 634503005717 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 634503005718 UbiA prenyltransferase family; Region: UbiA; pfam01040 634503005719 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 634503005720 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 634503005721 Subunit I/III interface [polypeptide binding]; other site 634503005722 Subunit III/IV interface [polypeptide binding]; other site 634503005723 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 634503005724 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 634503005725 D-pathway; other site 634503005726 Putative ubiquinol binding site [chemical binding]; other site 634503005727 Low-spin heme (heme b) binding site [chemical binding]; other site 634503005728 Putative water exit pathway; other site 634503005729 Binuclear center (heme o3/CuB) [ion binding]; other site 634503005730 K-pathway; other site 634503005731 Putative proton exit pathway; other site 634503005732 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 634503005733 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 634503005734 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 634503005735 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503005736 putative transposase OrfB; Reviewed; Region: PHA02517 634503005737 HTH-like domain; Region: HTH_21; pfam13276 634503005738 Integrase core domain; Region: rve; pfam00665 634503005739 Integrase core domain; Region: rve_2; pfam13333 634503005740 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503005741 MULE transposase domain; Region: MULE; pfam10551 634503005742 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 634503005743 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634503005744 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 634503005745 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 634503005746 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 634503005747 nucleotide binding region [chemical binding]; other site 634503005748 ATP-binding site [chemical binding]; other site 634503005749 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 634503005750 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 634503005751 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 634503005752 active site 634503005753 DNA binding site [nucleotide binding] 634503005754 Int/Topo IB signature motif; other site 634503005755 integrase; Provisional; Region: int; PHA02601 634503005756 Phage HP1 integrase, C-terminal catalytic domain. Bacteriophage HP1 and related integrases are found in eubacteria, plasmids and temperate bacteriophages of the P2 family. They belong to the DNA breaking-rejoining enzyme superfamily, which includes...; Region: HP1_INT_C; cd00797 634503005757 dimer interface [polypeptide binding]; other site 634503005758 active site 634503005759 catalytic residues [active] 634503005760 Int/Topo IB signature motif; other site 634503005761 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 634503005762 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK08010 634503005763 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; cl17393 634503005764 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 634503005765 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 634503005766 synthetase active site [active] 634503005767 NTP binding site [chemical binding]; other site 634503005768 metal binding site [ion binding]; metal-binding site 634503005769 AAA domain; Region: AAA_31; pfam13614 634503005770 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 634503005771 P-loop; other site 634503005772 Magnesium ion binding site [ion binding]; other site 634503005773 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 634503005774 Magnesium ion binding site [ion binding]; other site 634503005775 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 634503005776 Phage-related protein [Function unknown]; Region: COG4695; cl01923 634503005777 Phage portal protein; Region: Phage_portal; pfam04860 634503005778 terminase ATPase subunit; Provisional; Region: P; PHA02535 634503005779 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 634503005780 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 634503005781 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 634503005782 terminase endonuclease subunit; Provisional; Region: M; PHA02537 634503005783 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 634503005784 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 634503005785 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 634503005786 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 634503005787 Protein of unknown function (DUF2586); Region: DUF2586; pfam10758 634503005788 Protein of unknown function (DUF2597); Region: DUF2597; pfam10772 634503005789 Phage holin family 2; Region: Phage_holin_2; pfam04550 634503005790 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 634503005791 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 634503005792 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 634503005793 Protein of unknown function (DUF2765); Region: DUF2765; pfam10963 634503005794 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 634503005795 Protein of unknown function (DUF2590); Region: DUF2590; pfam10761 634503005796 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 634503005797 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 634503005798 Phage Tail Collar Domain; Region: Collar; pfam07484 634503005799 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 634503005800 chromosomal replication initiation protein; Provisional; Region: dnaA; PRK14086 634503005801 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 634503005802 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 634503005803 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 634503005804 GIY-YIG motif/motif A; other site 634503005805 active site 634503005806 catalytic site [active] 634503005807 putative DNA binding site [nucleotide binding]; other site 634503005808 metal binding site [ion binding]; metal-binding site 634503005809 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 634503005810 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 634503005811 response regulator; Provisional; Region: PRK09483 634503005812 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 634503005813 active site 634503005814 phosphorylation site [posttranslational modification] 634503005815 intermolecular recognition site; other site 634503005816 dimerization interface [polypeptide binding]; other site 634503005817 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 634503005818 DNA binding residues [nucleotide binding] 634503005819 dimerization interface [polypeptide binding]; other site 634503005820 hypothetical protein; Provisional; Region: PRK10613 634503005821 GlpM protein; Region: GlpM; cl01212 634503005822 chaperone protein HchA; Provisional; Region: PRK04155 634503005823 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 634503005824 conserved cys residue [active] 634503005825 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503005826 Phage anti-repressor protein [Transcription]; Region: COG3561 634503005827 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 634503005828 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503005829 MULE transposase domain; Region: MULE; pfam10551 634503005830 KilA-N domain; Region: KilA-N; pfam04383 634503005831 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 634503005832 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 634503005833 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 634503005834 Phage holin family (Lysis protein S); Region: Phage_holin_3; pfam05106 634503005835 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 634503005836 NADH dehydrogenase subunit C; Provisional; Region: PRK07785 634503005837 Replication protein P; Region: Phage_lambda_P; pfam06992 634503005838 Helix-turn-helix domain; Region: HTH_36; pfam13730 634503005839 Ash protein family; Region: Phage_ASH; pfam10554 634503005840 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 634503005841 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 634503005842 dimerization interface [polypeptide binding]; other site 634503005843 putative DNA binding site [nucleotide binding]; other site 634503005844 putative Zn2+ binding site [ion binding]; other site 634503005845 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 634503005846 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 634503005847 Catalytic site [active] 634503005848 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 634503005849 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 634503005850 AAA domain; Region: AAA_14; pfam13173 634503005851 Walker A motif; other site 634503005852 ATP binding site [chemical binding]; other site 634503005853 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503005854 MULE transposase domain; Region: MULE; pfam10551 634503005855 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503005856 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 634503005857 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 634503005858 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 634503005859 dimer interface [polypeptide binding]; other site 634503005860 active site 634503005861 Int/Topo IB signature motif; other site 634503005862 isocitrate dehydrogenase; Validated; Region: PRK07362 634503005863 isocitrate dehydrogenase; Reviewed; Region: PRK07006 634503005864 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 634503005865 pseudouridine synthase; Region: TIGR00093 634503005866 active site 634503005867 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 634503005868 nudix motif; other site 634503005869 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 634503005870 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 634503005871 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 634503005872 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 634503005873 metal binding site [ion binding]; metal-binding site 634503005874 active site 634503005875 I-site; other site 634503005876 putative lysogenization regulator; Reviewed; Region: PRK00218 634503005877 adenylosuccinate lyase; Provisional; Region: PRK09285 634503005878 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 634503005879 tetramer interface [polypeptide binding]; other site 634503005880 active site 634503005881 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 634503005882 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634503005883 DNA-binding site [nucleotide binding]; DNA binding site 634503005884 UTRA domain; Region: UTRA; pfam07702 634503005885 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 634503005886 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 634503005887 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 634503005888 active site 634503005889 phosphorylation site [posttranslational modification] 634503005890 intermolecular recognition site; other site 634503005891 dimerization interface [polypeptide binding]; other site 634503005892 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 634503005893 DNA binding site [nucleotide binding] 634503005894 sensor protein PhoQ; Provisional; Region: PRK10815 634503005895 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 634503005896 HAMP domain; Region: HAMP; pfam00672 634503005897 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 634503005898 dimer interface [polypeptide binding]; other site 634503005899 phosphorylation site [posttranslational modification] 634503005900 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 634503005901 ATP binding site [chemical binding]; other site 634503005902 Mg2+ binding site [ion binding]; other site 634503005903 G-X-G motif; other site 634503005904 Uncharacterized conserved protein [Function unknown]; Region: COG2850 634503005905 NAD-dependent deacetylase; Provisional; Region: PRK00481 634503005906 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 634503005907 NAD+ binding site [chemical binding]; other site 634503005908 substrate binding site [chemical binding]; other site 634503005909 Zn binding site [ion binding]; other site 634503005910 fructokinase; Reviewed; Region: PRK09557 634503005911 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 634503005912 nucleotide binding site [chemical binding]; other site 634503005913 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 634503005914 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 634503005915 FtsX-like permease family; Region: FtsX; pfam02687 634503005916 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 634503005917 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 634503005918 Walker A/P-loop; other site 634503005919 ATP binding site [chemical binding]; other site 634503005920 Q-loop/lid; other site 634503005921 ABC transporter signature motif; other site 634503005922 Walker B; other site 634503005923 D-loop; other site 634503005924 H-loop/switch region; other site 634503005925 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 634503005926 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 634503005927 FtsX-like permease family; Region: FtsX; pfam02687 634503005928 transcription-repair coupling factor; Provisional; Region: PRK10689 634503005929 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 634503005930 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 634503005931 ATP binding site [chemical binding]; other site 634503005932 putative Mg++ binding site [ion binding]; other site 634503005933 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 634503005934 nucleotide binding region [chemical binding]; other site 634503005935 ATP-binding site [chemical binding]; other site 634503005936 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 634503005937 hypothetical protein; Provisional; Region: PRK11280 634503005938 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 634503005939 EamA-like transporter family; Region: EamA; pfam00892 634503005940 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 634503005941 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634503005942 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 634503005943 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 634503005944 DinI-like family; Region: DinI; cl11630 634503005945 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 634503005946 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 634503005947 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634503005948 DNA-binding site [nucleotide binding]; DNA binding site 634503005949 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 634503005950 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503005951 homodimer interface [polypeptide binding]; other site 634503005952 catalytic residue [active] 634503005953 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 634503005954 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 634503005955 lipoprotein; Provisional; Region: PRK10540 634503005956 translation initiation factor Sui1; Validated; Region: PRK06824 634503005957 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 634503005958 putative rRNA binding site [nucleotide binding]; other site 634503005959 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 634503005960 active site 634503005961 dimer interface [polypeptide binding]; other site 634503005962 tetratricopeptide repeat protein; Provisional; Region: PRK11788 634503005963 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 634503005964 TPR motif; other site 634503005965 binding surface 634503005966 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 634503005967 binding surface 634503005968 TPR motif; other site 634503005969 Predicted membrane protein [Function unknown]; Region: COG3771 634503005970 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 634503005971 active site 634503005972 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 634503005973 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 634503005974 dimerization interface [polypeptide binding]; other site 634503005975 active site 634503005976 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 634503005977 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 634503005978 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 634503005979 Autotransporter beta-domain; Region: Autotransporter; pfam03797 634503005980 E3 ubiquitin-protein ligase SspH2; Provisional; Region: PRK15387 634503005981 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503005982 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634503005983 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 634503005984 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 634503005985 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 634503005986 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 634503005987 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 634503005988 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 634503005989 active site turn [active] 634503005990 phosphorylation site [posttranslational modification] 634503005991 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 634503005992 active site 634503005993 DNA polymerase III subunit delta'; Validated; Region: PRK07993 634503005994 DNA polymerase III subunit delta'; Validated; Region: PRK08485 634503005995 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 634503005996 thymidylate kinase; Validated; Region: tmk; PRK00698 634503005997 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 634503005998 TMP-binding site; other site 634503005999 ATP-binding site [chemical binding]; other site 634503006000 YceG-like family; Region: YceG; pfam02618 634503006001 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 634503006002 dimerization interface [polypeptide binding]; other site 634503006003 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 634503006004 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 634503006005 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503006006 catalytic residue [active] 634503006007 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 634503006008 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 634503006009 dimer interface [polypeptide binding]; other site 634503006010 active site 634503006011 acyl carrier protein; Provisional; Region: acpP; PRK00982 634503006012 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 634503006013 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 634503006014 NAD(P) binding site [chemical binding]; other site 634503006015 homotetramer interface [polypeptide binding]; other site 634503006016 homodimer interface [polypeptide binding]; other site 634503006017 active site 634503006018 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 634503006019 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 634503006020 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 634503006021 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 634503006022 dimer interface [polypeptide binding]; other site 634503006023 active site 634503006024 CoA binding pocket [chemical binding]; other site 634503006025 putative phosphate acyltransferase; Provisional; Region: PRK05331 634503006026 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 634503006027 hypothetical protein; Provisional; Region: PRK11193 634503006028 Maf-like protein; Region: Maf; pfam02545 634503006029 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 634503006030 active site 634503006031 dimer interface [polypeptide binding]; other site 634503006032 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 634503006033 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 634503006034 RNA binding surface [nucleotide binding]; other site 634503006035 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 634503006036 active site 634503006037 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 634503006038 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 634503006039 homodimer interface [polypeptide binding]; other site 634503006040 oligonucleotide binding site [chemical binding]; other site 634503006041 Uncharacterized conserved protein [Function unknown]; Region: COG1359 634503006042 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 634503006043 active site 634503006044 substrate binding pocket [chemical binding]; other site 634503006045 dimer interface [polypeptide binding]; other site 634503006046 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 634503006047 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 634503006048 Walker A/P-loop; other site 634503006049 ATP binding site [chemical binding]; other site 634503006050 Q-loop/lid; other site 634503006051 ABC transporter signature motif; other site 634503006052 Walker B; other site 634503006053 D-loop; other site 634503006054 H-loop/switch region; other site 634503006055 TIGR00245 family protein; Region: TIGR00245 634503006056 fumarate hydratase; Provisional; Region: PRK15389 634503006057 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 634503006058 Fumarase C-terminus; Region: Fumerase_C; pfam05683 634503006059 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 634503006060 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503006061 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634503006062 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 634503006063 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 634503006064 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 634503006065 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 634503006066 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 634503006067 acyl-activating enzyme (AAE) consensus motif; other site 634503006068 AMP binding site [chemical binding]; other site 634503006069 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 634503006070 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 634503006071 putative NAD(P) binding site [chemical binding]; other site 634503006072 active site 634503006073 putative substrate binding site [chemical binding]; other site 634503006074 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 634503006075 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 634503006076 acyl-activating enzyme (AAE) consensus motif; other site 634503006077 AMP binding site [chemical binding]; other site 634503006078 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 634503006079 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 634503006080 Integrase core domain; Region: rve_3; cl15866 634503006081 Transposase; Region: HTH_Tnp_1; cl17663 634503006082 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 634503006083 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 634503006084 Walker A/P-loop; other site 634503006085 ATP binding site [chemical binding]; other site 634503006086 Q-loop/lid; other site 634503006087 ABC transporter signature motif; other site 634503006088 Walker B; other site 634503006089 D-loop; other site 634503006090 H-loop/switch region; other site 634503006091 flagella biosynthesis protein FliZ; Provisional; Region: PRK11582 634503006092 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 634503006093 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634503006094 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 634503006095 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 634503006096 DNA binding residues [nucleotide binding] 634503006097 flagellin; Validated; Region: PRK06819 634503006098 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 634503006099 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 634503006100 flagellin; Validated; Region: PRK06819 634503006101 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 634503006102 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 634503006103 flagellin; Validated; Region: PRK06819 634503006104 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 634503006105 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 634503006106 Transposase, Mutator family; Region: Transposase_mut; pfam00872 634503006107 flagellin; Validated; Region: PRK06819 634503006108 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 634503006109 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 634503006110 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 634503006111 flagellar capping protein; Reviewed; Region: fliD; PRK08032 634503006112 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 634503006113 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 634503006114 flagellar protein FliS; Validated; Region: fliS; PRK05685 634503006115 Flagellar protein FliT; Region: FliT; cl05125 634503006116 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 634503006117 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 634503006118 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 634503006119 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 634503006120 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 634503006121 Uncharacterized conserved protein [Function unknown]; Region: COG3334 634503006122 FliG C-terminal domain; Region: FliG_C; pfam01706 634503006123 flagellar assembly protein H; Validated; Region: fliH; PRK05687 634503006124 Flagellar assembly protein FliH; Region: FliH; pfam02108 634503006125 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 634503006126 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 634503006127 Walker A motif/ATP binding site; other site 634503006128 Walker B motif; other site 634503006129 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 634503006130 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 634503006131 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 634503006132 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 634503006133 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 634503006134 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 634503006135 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 634503006136 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 634503006137 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 634503006138 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 634503006139 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 634503006140 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 634503006141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 634503006142 Peptidase M15; Region: Peptidase_M15_3; cl01194 634503006143 murein L,D-transpeptidase; Provisional; Region: PRK10594 634503006144 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 634503006145 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 634503006146 cell division protein MukB; Provisional; Region: mukB; PRK04863 634503006147 P-loop containing region of AAA domain; Region: AAA_29; cl17516 634503006148 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 634503006149 condesin subunit E; Provisional; Region: PRK05256 634503006150 condesin subunit F; Provisional; Region: PRK05260 634503006151 Methyltransferase domain; Region: Methyltransf_31; pfam13847 634503006152 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 634503006153 S-adenosylmethionine binding site [chemical binding]; other site 634503006154 Uncharacterized conserved protein [Function unknown]; Region: COG1434 634503006155 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 634503006156 putative active site [active] 634503006157 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 634503006158 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 634503006159 active site 634503006160 putative substrate binding pocket [chemical binding]; other site 634503006161 xanthine permease; Region: pbuX; TIGR03173 634503006162 hypothetical protein; Provisional; Region: PRK10593 634503006163 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 634503006164 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 634503006165 Ligand binding site; other site 634503006166 oligomer interface; other site 634503006167 Trm112p-like protein; Region: Trm112p; cl01066 634503006168 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 634503006169 DNA-binding site [nucleotide binding]; DNA binding site 634503006170 RNA-binding motif; other site 634503006171 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 634503006172 DNA-binding site [nucleotide binding]; DNA binding site 634503006173 RNA-binding motif; other site 634503006174 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 634503006175 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 634503006176 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 634503006177 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634503006178 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 634503006179 Walker A/P-loop; other site 634503006180 ATP binding site [chemical binding]; other site 634503006181 Q-loop/lid; other site 634503006182 ABC transporter signature motif; other site 634503006183 Walker B; other site 634503006184 D-loop; other site 634503006185 H-loop/switch region; other site 634503006186 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 634503006187 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 634503006188 Competence protein; Region: Competence; pfam03772 634503006189 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 634503006190 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 634503006191 IHF dimer interface [polypeptide binding]; other site 634503006192 IHF - DNA interface [nucleotide binding]; other site 634503006193 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 634503006194 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 634503006195 RNA binding site [nucleotide binding]; other site 634503006196 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 634503006197 RNA binding site [nucleotide binding]; other site 634503006198 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 634503006199 RNA binding site [nucleotide binding]; other site 634503006200 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 634503006201 RNA binding site [nucleotide binding]; other site 634503006202 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 634503006203 RNA binding site [nucleotide binding]; other site 634503006204 cytidylate kinase; Provisional; Region: cmk; PRK00023 634503006205 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 634503006206 CMP-binding site; other site 634503006207 The sites determining sugar specificity; other site 634503006208 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 634503006209 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 634503006210 hinge; other site 634503006211 active site 634503006212 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634503006213 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 634503006214 homodimer interface [polypeptide binding]; other site 634503006215 substrate-cofactor binding pocket; other site 634503006216 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503006217 catalytic residue [active] 634503006218 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 634503006219 homodimer interface [polypeptide binding]; other site 634503006220 active site 634503006221 uncharacterized domain; Region: TIGR00702 634503006222 YcaO-like family; Region: YcaO; pfam02624 634503006223 formate transporter; Provisional; Region: PRK10805 634503006224 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 634503006225 Pyruvate formate lyase 1; Region: PFL1; cd01678 634503006226 coenzyme A binding site [chemical binding]; other site 634503006227 active site 634503006228 catalytic residues [active] 634503006229 glycine loop; other site 634503006230 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 634503006231 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 634503006232 FeS/SAM binding site; other site 634503006233 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634503006234 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634503006235 Protein of unknown function, DUF417; Region: DUF417; cl01162 634503006236 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 634503006237 catalytic residues [active] 634503006238 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 634503006239 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 634503006240 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 634503006241 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; cl00163 634503006242 active site 634503006243 phosphorylation site [posttranslational modification] 634503006244 putative MFS family transporter protein; Provisional; Region: PRK03633 634503006245 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 634503006246 putative substrate translocation pore; other site 634503006247 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 634503006248 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 634503006249 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 634503006250 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 634503006251 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 634503006252 4Fe-4S binding domain; Region: Fer4; cl02805 634503006253 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 634503006254 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 634503006255 putative [Fe4-S4] binding site [ion binding]; other site 634503006256 putative molybdopterin cofactor binding site [chemical binding]; other site 634503006257 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 634503006258 putative molybdopterin cofactor binding site; other site 634503006259 seryl-tRNA synthetase; Provisional; Region: PRK05431 634503006260 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 634503006261 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 634503006262 dimer interface [polypeptide binding]; other site 634503006263 active site 634503006264 motif 1; other site 634503006265 motif 2; other site 634503006266 motif 3; other site 634503006267 recombination factor protein RarA; Reviewed; Region: PRK13342 634503006268 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 634503006269 Walker A motif; other site 634503006270 ATP binding site [chemical binding]; other site 634503006271 Walker B motif; other site 634503006272 arginine finger; other site 634503006273 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 634503006274 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 634503006275 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 634503006276 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 634503006277 DNA translocase FtsK; Provisional; Region: PRK10263 634503006278 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 634503006279 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 634503006280 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 634503006281 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 634503006282 putative DNA binding site [nucleotide binding]; other site 634503006283 putative Zn2+ binding site [ion binding]; other site 634503006284 AsnC family; Region: AsnC_trans_reg; pfam01037 634503006285 thioredoxin reductase; Provisional; Region: PRK10262 634503006286 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634503006287 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634503006288 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 634503006289 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634503006290 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634503006291 Walker A/P-loop; other site 634503006292 ATP binding site [chemical binding]; other site 634503006293 Q-loop/lid; other site 634503006294 ABC transporter signature motif; other site 634503006295 Walker B; other site 634503006296 D-loop; other site 634503006297 H-loop/switch region; other site 634503006298 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 634503006299 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634503006300 Walker A/P-loop; other site 634503006301 ATP binding site [chemical binding]; other site 634503006302 Q-loop/lid; other site 634503006303 ABC transporter signature motif; other site 634503006304 Walker B; other site 634503006305 D-loop; other site 634503006306 H-loop/switch region; other site 634503006307 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 634503006308 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 634503006309 rRNA binding site [nucleotide binding]; other site 634503006310 predicted 30S ribosome binding site; other site 634503006311 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 634503006312 Clp amino terminal domain; Region: Clp_N; pfam02861 634503006313 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 634503006314 Walker A motif; other site 634503006315 ATP binding site [chemical binding]; other site 634503006316 Walker B motif; other site 634503006317 arginine finger; other site 634503006318 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 634503006319 Walker A motif; other site 634503006320 ATP binding site [chemical binding]; other site 634503006321 Walker B motif; other site 634503006322 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 634503006323 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 634503006324 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 634503006325 DNA-binding site [nucleotide binding]; DNA binding site 634503006326 RNA-binding motif; other site 634503006327 Protein of unknown function (DUF535); Region: DUF535; pfam04393 634503006328 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 634503006329 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 634503006330 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 634503006331 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 634503006332 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 634503006333 putative active site [active] 634503006334 putative metal-binding site [ion binding]; other site 634503006335 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 634503006336 Predicted membrane protein [Function unknown]; Region: COG2431 634503006337 hybrid cluster protein; Provisional; Region: PRK05290 634503006338 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 634503006339 ACS interaction site; other site 634503006340 CODH interaction site; other site 634503006341 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 634503006342 hybrid metal cluster; other site 634503006343 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 634503006344 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 634503006345 FAD binding pocket [chemical binding]; other site 634503006346 conserved FAD binding motif [chemical binding]; other site 634503006347 phosphate binding motif [ion binding]; other site 634503006348 beta-alpha-beta structure motif; other site 634503006349 NAD binding pocket [chemical binding]; other site 634503006350 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 634503006351 catalytic loop [active] 634503006352 iron binding site [ion binding]; other site 634503006353 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 634503006354 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 634503006355 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 634503006356 ATP binding site [chemical binding]; other site 634503006357 putative Mg++ binding site [ion binding]; other site 634503006358 Fic family protein [Function unknown]; Region: COG3177 634503006359 Fic/DOC family; Region: Fic; pfam02661 634503006360 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 634503006361 putative DNA binding site [nucleotide binding]; other site 634503006362 putative Zn2+ binding site [ion binding]; other site 634503006363 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634503006364 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634503006365 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 634503006366 HsdM N-terminal domain; Region: HsdM_N; pfam12161 634503006367 Methyltransferase domain; Region: Methyltransf_26; pfam13659 634503006368 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 634503006369 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 634503006370 tetramer interface [polypeptide binding]; other site 634503006371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503006372 catalytic residue [active] 634503006373 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 634503006374 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 634503006375 putative NAD(P) binding site [chemical binding]; other site 634503006376 putative active site [active] 634503006377 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 634503006378 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634503006379 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503006380 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 634503006381 dimerization interface [polypeptide binding]; other site 634503006382 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 634503006383 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 634503006384 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 634503006385 putative substrate translocation pore; other site 634503006386 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 634503006387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634503006388 NAD(P) binding site [chemical binding]; other site 634503006389 active site 634503006390 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 634503006391 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 634503006392 amidase catalytic site [active] 634503006393 Zn binding residues [ion binding]; other site 634503006394 substrate binding site [chemical binding]; other site 634503006395 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 634503006396 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 634503006397 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 634503006398 DNA binding residues [nucleotide binding] 634503006399 dimerization interface [polypeptide binding]; other site 634503006400 Fimbrial protein; Region: Fimbrial; cl01416 634503006401 fimbrial chaperone protein PegB; Provisional; Region: PRK15218 634503006402 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 634503006403 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 634503006404 fimbrial outer membrane usher protein; Provisional; Region: PRK15217 634503006405 PapC N-terminal domain; Region: PapC_N; pfam13954 634503006406 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 634503006407 PapC C-terminal domain; Region: PapC_C; pfam13953 634503006408 putative fimbrial biosynthesis regulatory protein; Provisional; Region: PRK15216 634503006409 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 634503006410 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634503006411 Walker A/P-loop; other site 634503006412 ATP binding site [chemical binding]; other site 634503006413 Q-loop/lid; other site 634503006414 ABC transporter signature motif; other site 634503006415 Walker B; other site 634503006416 D-loop; other site 634503006417 H-loop/switch region; other site 634503006418 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 634503006419 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 634503006420 substrate binding pocket [chemical binding]; other site 634503006421 membrane-bound complex binding site; other site 634503006422 hinge residues; other site 634503006423 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 634503006424 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 634503006425 dimer interface [polypeptide binding]; other site 634503006426 conserved gate region; other site 634503006427 putative PBP binding loops; other site 634503006428 ABC-ATPase subunit interface; other site 634503006429 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 634503006430 dimer interface [polypeptide binding]; other site 634503006431 conserved gate region; other site 634503006432 putative PBP binding loops; other site 634503006433 ABC-ATPase subunit interface; other site 634503006434 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 634503006435 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 634503006436 substrate binding pocket [chemical binding]; other site 634503006437 membrane-bound complex binding site; other site 634503006438 hinge residues; other site 634503006439 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 634503006440 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 634503006441 DNA binding site [nucleotide binding] 634503006442 active site 634503006443 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 634503006444 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 634503006445 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 634503006446 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 634503006447 dimer interface [polypeptide binding]; other site 634503006448 FMN binding site [chemical binding]; other site 634503006449 NADPH bind site [chemical binding]; other site 634503006450 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 634503006451 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 634503006452 putative transporter; Provisional; Region: PRK04972 634503006453 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 634503006454 TrkA-C domain; Region: TrkA_C; pfam02080 634503006455 TrkA-C domain; Region: TrkA_C; pfam02080 634503006456 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 634503006457 Transposase, Mutator family; Region: Transposase_mut; pfam00872 634503006458 MULE transposase domain; Region: MULE; pfam10551 634503006459 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 634503006460 DDE superfamily endonuclease; Region: DDE_3; pfam13358 634503006461 Winged helix-turn helix; Region: HTH_29; pfam13551 634503006462 Homeodomain-like domain; Region: HTH_23; pfam13384 634503006463 Homeodomain-like domain; Region: HTH_32; pfam13565 634503006464 Homeodomain-like domain; Region: HTH_23; pfam13384 634503006465 Winged helix-turn helix; Region: HTH_29; pfam13551 634503006466 Homeodomain-like domain; Region: HTH_32; pfam13565 634503006467 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 634503006468 DDE superfamily endonuclease; Region: DDE_3; pfam13358 634503006469 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 634503006470 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 634503006471 dimerization interface [polypeptide binding]; other site 634503006472 ligand binding site [chemical binding]; other site 634503006473 NADP binding site [chemical binding]; other site 634503006474 catalytic site [active] 634503006475 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 634503006476 active site 634503006477 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 634503006478 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 634503006479 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 634503006480 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 634503006481 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 634503006482 serine transporter; Region: stp; TIGR00814 634503006483 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 634503006484 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 634503006485 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 634503006486 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 634503006487 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 634503006488 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 634503006489 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 634503006490 substrate binding site [chemical binding]; other site 634503006491 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 634503006492 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634503006493 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 634503006494 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 634503006495 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 634503006496 Homeodomain-like domain; Region: HTH_23; pfam13384 634503006497 Winged helix-turn helix; Region: HTH_29; pfam13551 634503006498 DDE superfamily endonuclease; Region: DDE_3; pfam13358 634503006499 DDE superfamily endonuclease; Region: DDE_3; pfam13358 634503006500 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 634503006501 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 634503006502 Homeodomain-like domain; Region: HTH_23; pfam13384 634503006503 Winged helix-turn helix; Region: HTH_29; pfam13551 634503006504 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 634503006505 DDE superfamily endonuclease; Region: DDE_3; pfam13358 634503006506 DDE superfamily endonuclease; Region: DDE_3; pfam13358 634503006507 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 634503006508 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 634503006509 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 634503006510 FeS/SAM binding site; other site 634503006511 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 634503006512 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 634503006513 putative NAD(P) binding site [chemical binding]; other site 634503006514 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 634503006515 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 634503006516 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 634503006517 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 634503006518 histidinol dehydrogenase; Region: hisD; TIGR00069 634503006519 NAD binding site [chemical binding]; other site 634503006520 dimerization interface [polypeptide binding]; other site 634503006521 product binding site; other site 634503006522 substrate binding site [chemical binding]; other site 634503006523 zinc binding site [ion binding]; other site 634503006524 catalytic residues [active] 634503006525 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 634503006526 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 634503006527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503006528 homodimer interface [polypeptide binding]; other site 634503006529 catalytic residue [active] 634503006530 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 634503006531 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 634503006532 active site 634503006533 motif I; other site 634503006534 motif II; other site 634503006535 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 634503006536 putative active site pocket [active] 634503006537 4-fold oligomerization interface [polypeptide binding]; other site 634503006538 metal binding residues [ion binding]; metal-binding site 634503006539 3-fold/trimer interface [polypeptide binding]; other site 634503006540 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 634503006541 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 634503006542 putative active site [active] 634503006543 oxyanion strand; other site 634503006544 catalytic triad [active] 634503006545 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 634503006546 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 634503006547 catalytic residues [active] 634503006548 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 634503006549 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 634503006550 substrate binding site [chemical binding]; other site 634503006551 glutamase interaction surface [polypeptide binding]; other site 634503006552 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 634503006553 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 634503006554 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 634503006555 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 634503006556 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 634503006557 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 634503006558 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 634503006559 molybdopterin cofactor binding site [chemical binding]; other site 634503006560 substrate binding site [chemical binding]; other site 634503006561 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 634503006562 molybdopterin cofactor binding site; other site 634503006563 sugar efflux transporter B; Provisional; Region: PRK15011 634503006564 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 634503006565 putative substrate translocation pore; other site 634503006566 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 634503006567 aromatic amino acid transport protein; Region: araaP; TIGR00837 634503006568 elongation factor P; Provisional; Region: PRK04542 634503006569 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 634503006570 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 634503006571 RNA binding site [nucleotide binding]; other site 634503006572 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 634503006573 RNA binding site [nucleotide binding]; other site 634503006574 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503006575 mannonate dehydratase; Provisional; Region: PRK03906 634503006576 mannonate dehydratase; Region: uxuA; TIGR00695 634503006577 D-mannonate oxidoreductase; Provisional; Region: PRK15037 634503006578 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 634503006579 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 634503006580 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 634503006581 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 634503006582 dimer interface [polypeptide binding]; other site 634503006583 ligand binding site [chemical binding]; other site 634503006584 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 634503006585 dimerization interface [polypeptide binding]; other site 634503006586 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 634503006587 dimer interface [polypeptide binding]; other site 634503006588 putative CheW interface [polypeptide binding]; other site 634503006589 phage resistance protein; Provisional; Region: PRK10551 634503006590 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 634503006591 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 634503006592 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 634503006593 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634503006594 DNA-binding site [nucleotide binding]; DNA binding site 634503006595 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 634503006596 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 634503006597 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 634503006598 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 634503006599 NlpC/P60 family; Region: NLPC_P60; pfam00877 634503006600 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 634503006601 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 634503006602 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 634503006603 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 634503006604 active site 634503006605 P-loop; other site 634503006606 phosphorylation site [posttranslational modification] 634503006607 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 634503006608 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 634503006609 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 634503006610 putative substrate binding site [chemical binding]; other site 634503006611 putative ATP binding site [chemical binding]; other site 634503006612 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 634503006613 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 634503006614 active site 634503006615 phosphorylation site [posttranslational modification] 634503006616 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 634503006617 dimerization domain swap beta strand [polypeptide binding]; other site 634503006618 regulatory protein interface [polypeptide binding]; other site 634503006619 active site 634503006620 regulatory phosphorylation site [posttranslational modification]; other site 634503006621 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_19; cd04678 634503006622 nudix motif; other site 634503006623 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 634503006624 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 634503006625 substrate binding pocket [chemical binding]; other site 634503006626 membrane-bound complex binding site; other site 634503006627 hinge residues; other site 634503006628 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 634503006629 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 634503006630 dimer interface [polypeptide binding]; other site 634503006631 conserved gate region; other site 634503006632 putative PBP binding loops; other site 634503006633 ABC-ATPase subunit interface; other site 634503006634 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 634503006635 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 634503006636 Walker A/P-loop; other site 634503006637 ATP binding site [chemical binding]; other site 634503006638 Q-loop/lid; other site 634503006639 ABC transporter signature motif; other site 634503006640 Walker B; other site 634503006641 D-loop; other site 634503006642 H-loop/switch region; other site 634503006643 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 634503006644 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 634503006645 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 634503006646 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 634503006647 hypothetical protein; Provisional; Region: PRK11835 634503006648 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 634503006649 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 634503006650 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 634503006651 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 634503006652 RNA binding surface [nucleotide binding]; other site 634503006653 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 634503006654 active site 634503006655 uracil binding [chemical binding]; other site 634503006656 probable metal-binding protein; Region: matur_matur; TIGR03853 634503006657 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 634503006658 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 634503006659 ATP binding site [chemical binding]; other site 634503006660 putative Mg++ binding site [ion binding]; other site 634503006661 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 634503006662 nucleotide binding region [chemical binding]; other site 634503006663 ATP-binding site [chemical binding]; other site 634503006664 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 634503006665 5S rRNA interface [nucleotide binding]; other site 634503006666 CTC domain interface [polypeptide binding]; other site 634503006667 L16 interface [polypeptide binding]; other site 634503006668 nucleoid-associated protein NdpA; Validated; Region: PRK00378 634503006669 Nucleoid-associated protein [General function prediction only]; Region: COG3081 634503006670 hypothetical protein; Provisional; Region: PRK13689 634503006671 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 634503006672 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 634503006673 Sulfatase; Region: Sulfatase; cl17466 634503006674 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 634503006675 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 634503006676 metal binding site [ion binding]; metal-binding site 634503006677 active site 634503006678 I-site; other site 634503006679 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 634503006680 substrate binding pocket [chemical binding]; other site 634503006681 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 634503006682 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 634503006683 Ligand Binding Site [chemical binding]; other site 634503006684 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 634503006685 DHH family; Region: DHH; pfam01368 634503006686 DHHA2 domain; Region: DHHA2; pfam02833 634503006687 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634503006688 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634503006689 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 634503006690 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634503006691 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 634503006692 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 634503006693 ATP binding site [chemical binding]; other site 634503006694 Mg++ binding site [ion binding]; other site 634503006695 motif III; other site 634503006696 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 634503006697 nucleotide binding region [chemical binding]; other site 634503006698 ATP-binding site [chemical binding]; other site 634503006699 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 634503006700 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634503006701 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 634503006702 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 634503006703 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634503006704 HlyD family secretion protein; Region: HlyD_3; pfam13437 634503006705 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 634503006706 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 634503006707 Walker A/P-loop; other site 634503006708 ATP binding site [chemical binding]; other site 634503006709 Q-loop/lid; other site 634503006710 ABC transporter signature motif; other site 634503006711 Walker B; other site 634503006712 D-loop; other site 634503006713 H-loop/switch region; other site 634503006714 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 634503006715 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 634503006716 Walker A/P-loop; other site 634503006717 ATP binding site [chemical binding]; other site 634503006718 Q-loop/lid; other site 634503006719 ABC transporter signature motif; other site 634503006720 Walker B; other site 634503006721 D-loop; other site 634503006722 H-loop/switch region; other site 634503006723 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 634503006724 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 634503006725 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 634503006726 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 634503006727 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 634503006728 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 634503006729 ATP binding site [chemical binding]; other site 634503006730 Mg2+ binding site [ion binding]; other site 634503006731 G-X-G motif; other site 634503006732 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 634503006733 putative binding surface; other site 634503006734 active site 634503006735 transcriptional regulator RcsB; Provisional; Region: PRK10840 634503006736 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 634503006737 active site 634503006738 phosphorylation site [posttranslational modification] 634503006739 intermolecular recognition site; other site 634503006740 dimerization interface [polypeptide binding]; other site 634503006741 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 634503006742 DNA binding residues [nucleotide binding] 634503006743 dimerization interface [polypeptide binding]; other site 634503006744 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 634503006745 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 634503006746 dimer interface [polypeptide binding]; other site 634503006747 phosphorylation site [posttranslational modification] 634503006748 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 634503006749 ATP binding site [chemical binding]; other site 634503006750 Mg2+ binding site [ion binding]; other site 634503006751 G-X-G motif; other site 634503006752 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 634503006753 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 634503006754 active site 634503006755 phosphorylation site [posttranslational modification] 634503006756 intermolecular recognition site; other site 634503006757 dimerization interface [polypeptide binding]; other site 634503006758 DNA gyrase subunit A; Validated; Region: PRK05560 634503006759 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 634503006760 CAP-like domain; other site 634503006761 active site 634503006762 primary dimer interface [polypeptide binding]; other site 634503006763 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634503006764 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634503006765 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634503006766 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634503006767 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634503006768 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634503006769 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 634503006770 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 634503006771 S-adenosylmethionine binding site [chemical binding]; other site 634503006772 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 634503006773 ATP cone domain; Region: ATP-cone; pfam03477 634503006774 Class I ribonucleotide reductase; Region: RNR_I; cd01679 634503006775 active site 634503006776 dimer interface [polypeptide binding]; other site 634503006777 catalytic residues [active] 634503006778 effector binding site; other site 634503006779 R2 peptide binding site; other site 634503006780 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 634503006781 dimer interface [polypeptide binding]; other site 634503006782 putative radical transfer pathway; other site 634503006783 diiron center [ion binding]; other site 634503006784 tyrosyl radical; other site 634503006785 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 634503006786 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 634503006787 catalytic loop [active] 634503006788 iron binding site [ion binding]; other site 634503006789 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 634503006790 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 634503006791 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 634503006792 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 634503006793 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 634503006794 MoaE homodimer interface [polypeptide binding]; other site 634503006795 MoaD interaction [polypeptide binding]; other site 634503006796 active site residues [active] 634503006797 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 634503006798 MoaE interaction surface [polypeptide binding]; other site 634503006799 MoeB interaction surface [polypeptide binding]; other site 634503006800 thiocarboxylated glycine; other site 634503006801 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 634503006802 trimer interface [polypeptide binding]; other site 634503006803 dimer interface [polypeptide binding]; other site 634503006804 putative active site [active] 634503006805 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 634503006806 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 634503006807 FeS/SAM binding site; other site 634503006808 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 634503006809 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 634503006810 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 634503006811 phosphate binding site [ion binding]; other site 634503006812 putative substrate binding pocket [chemical binding]; other site 634503006813 dimer interface [polypeptide binding]; other site 634503006814 hypothetical protein; Provisional; Region: PRK03673 634503006815 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 634503006816 putative MPT binding site; other site 634503006817 tyrosine transporter TyrP; Provisional; Region: PRK15132 634503006818 aromatic amino acid transport protein; Region: araaP; TIGR00837 634503006819 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 634503006820 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 634503006821 active site 634503006822 HIGH motif; other site 634503006823 dimer interface [polypeptide binding]; other site 634503006824 KMSKS motif; other site 634503006825 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 634503006826 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 634503006827 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 634503006828 acyl-activating enzyme (AAE) consensus motif; other site 634503006829 putative AMP binding site [chemical binding]; other site 634503006830 putative active site [active] 634503006831 putative CoA binding site [chemical binding]; other site 634503006832 O-succinylbenzoate synthase; Provisional; Region: PRK05105 634503006833 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 634503006834 active site 634503006835 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 634503006836 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 634503006837 substrate binding site [chemical binding]; other site 634503006838 oxyanion hole (OAH) forming residues; other site 634503006839 trimer interface [polypeptide binding]; other site 634503006840 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 634503006841 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 634503006842 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 634503006843 dimer interface [polypeptide binding]; other site 634503006844 tetramer interface [polypeptide binding]; other site 634503006845 PYR/PP interface [polypeptide binding]; other site 634503006846 TPP binding site [chemical binding]; other site 634503006847 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 634503006848 TPP-binding site; other site 634503006849 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 634503006850 chorismate binding enzyme; Region: Chorismate_bind; cl10555 634503006851 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 634503006852 Peptidase family C69; Region: Peptidase_C69; pfam03577 634503006853 Protein of unknown function (DUF3457); Region: DUF3457; cl08122 634503006854 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 634503006855 nickel binding site [ion binding]; other site 634503006856 putative substrate-binding site; other site 634503006857 hydrogenase 2 large subunit; Provisional; Region: PRK10467 634503006858 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 634503006859 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 634503006860 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 634503006861 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 634503006862 hydrogenase 2 small subunit; Provisional; Region: PRK10468 634503006863 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 634503006864 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK09822 634503006865 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 634503006866 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 634503006867 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 634503006868 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 634503006869 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 634503006870 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 634503006871 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 634503006872 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 634503006873 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 634503006874 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 634503006875 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 634503006876 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 634503006877 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 634503006878 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 634503006879 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 634503006880 4Fe-4S binding domain; Region: Fer4; pfam00037 634503006881 4Fe-4S binding domain; Region: Fer4; pfam00037 634503006882 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 634503006883 NADH dehydrogenase subunit G; Validated; Region: PRK08166 634503006884 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 634503006885 catalytic loop [active] 634503006886 iron binding site [ion binding]; other site 634503006887 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 634503006888 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 634503006889 [4Fe-4S] binding site [ion binding]; other site 634503006890 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 634503006891 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 634503006892 SLBB domain; Region: SLBB; pfam10531 634503006893 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 634503006894 NADH dehydrogenase subunit E; Validated; Region: PRK07539 634503006895 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 634503006896 putative dimer interface [polypeptide binding]; other site 634503006897 [2Fe-2S] cluster binding site [ion binding]; other site 634503006898 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 634503006899 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 634503006900 NADH dehydrogenase subunit D; Validated; Region: PRK06075 634503006901 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 634503006902 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 634503006903 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 634503006904 putative dimerization interface [polypeptide binding]; other site 634503006905 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503006906 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503006907 Uncharacterized conserved protein [Function unknown]; Region: COG0398 634503006908 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 634503006909 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 634503006910 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 634503006911 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 634503006912 active site residue [active] 634503006913 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 634503006914 active site residue [active] 634503006915 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 634503006916 Uncharacterized conserved protein [Function unknown]; Region: COG2128 634503006917 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 634503006918 aminotransferase AlaT; Validated; Region: PRK09265 634503006919 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 634503006920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503006921 homodimer interface [polypeptide binding]; other site 634503006922 catalytic residue [active] 634503006923 5'-nucleotidase; Provisional; Region: PRK03826 634503006924 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 634503006925 transmembrane helices; other site 634503006926 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 634503006927 TrkA-C domain; Region: TrkA_C; pfam02080 634503006928 TrkA-C domain; Region: TrkA_C; pfam02080 634503006929 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 634503006930 putative phosphatase; Provisional; Region: PRK11587 634503006931 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 634503006932 active site 634503006933 motif I; other site 634503006934 motif II; other site 634503006935 hypothetical protein; Validated; Region: PRK05445 634503006936 hypothetical protein; Provisional; Region: PRK01816 634503006937 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 634503006938 propionate/acetate kinase; Provisional; Region: PRK12379 634503006939 phosphate acetyltransferase; Reviewed; Region: PRK05632 634503006940 DRTGG domain; Region: DRTGG; pfam07085 634503006941 phosphate acetyltransferase; Region: pta; TIGR00651 634503006942 HTH-like domain; Region: HTH_21; pfam13276 634503006943 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 634503006944 Integrase core domain; Region: rve; pfam00665 634503006945 Integrase core domain; Region: rve_3; pfam13683 634503006946 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634503006947 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 634503006948 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 634503006949 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634503006950 Transposase; Region: HTH_Tnp_1; pfam01527 634503006951 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 634503006952 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 634503006953 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 634503006954 NAD(P) binding site [chemical binding]; other site 634503006955 catalytic residues [active] 634503006956 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 634503006957 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 634503006958 PYR/PP interface [polypeptide binding]; other site 634503006959 dimer interface [polypeptide binding]; other site 634503006960 TPP binding site [chemical binding]; other site 634503006961 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 634503006962 TPP-binding site; other site 634503006963 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 634503006964 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 634503006965 tetramer interface [polypeptide binding]; other site 634503006966 active site 634503006967 Mg2+/Mn2+ binding site [ion binding]; other site 634503006968 Protein of unknown function (DUF3747); Region: DUF3747; pfam12565 634503006969 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 634503006970 active site residue [active] 634503006971 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 634503006972 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 634503006973 nudix motif; other site 634503006974 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 634503006975 active site 634503006976 metal binding site [ion binding]; metal-binding site 634503006977 homotetramer interface [polypeptide binding]; other site 634503006978 glutathione S-transferase; Provisional; Region: PRK15113 634503006979 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 634503006980 C-terminal domain interface [polypeptide binding]; other site 634503006981 GSH binding site (G-site) [chemical binding]; other site 634503006982 dimer interface [polypeptide binding]; other site 634503006983 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 634503006984 N-terminal domain interface [polypeptide binding]; other site 634503006985 putative dimer interface [polypeptide binding]; other site 634503006986 putative substrate binding pocket (H-site) [chemical binding]; other site 634503006987 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 634503006988 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 634503006989 C-terminal domain interface [polypeptide binding]; other site 634503006990 GSH binding site (G-site) [chemical binding]; other site 634503006991 dimer interface [polypeptide binding]; other site 634503006992 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 634503006993 N-terminal domain interface [polypeptide binding]; other site 634503006994 putative dimer interface [polypeptide binding]; other site 634503006995 active site 634503006996 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 634503006997 homooctamer interface [polypeptide binding]; other site 634503006998 active site 634503006999 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 634503007000 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 634503007001 putative NAD(P) binding site [chemical binding]; other site 634503007002 putative active site [active] 634503007003 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 634503007004 classical (c) SDRs; Region: SDR_c; cd05233 634503007005 NAD(P) binding site [chemical binding]; other site 634503007006 active site 634503007007 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 634503007008 Flavoprotein; Region: Flavoprotein; pfam02441 634503007009 amidophosphoribosyltransferase; Provisional; Region: PRK09246 634503007010 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 634503007011 active site 634503007012 tetramer interface [polypeptide binding]; other site 634503007013 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634503007014 active site 634503007015 Colicin V production protein; Region: Colicin_V; cl00567 634503007016 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 634503007017 cell division protein DedD; Provisional; Region: PRK11633 634503007018 Sporulation related domain; Region: SPOR; pfam05036 634503007019 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 634503007020 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634503007021 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 634503007022 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 634503007023 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 634503007024 hypothetical protein; Provisional; Region: PRK10847 634503007025 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 634503007026 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 634503007027 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 634503007028 dimerization interface 3.5A [polypeptide binding]; other site 634503007029 active site 634503007030 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 634503007031 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 634503007032 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 634503007033 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 634503007034 ligand binding site [chemical binding]; other site 634503007035 NAD binding site [chemical binding]; other site 634503007036 catalytic site [active] 634503007037 homodimer interface [polypeptide binding]; other site 634503007038 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 634503007039 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 634503007040 Methyltransferase domain; Region: Methyltransf_31; pfam13847 634503007041 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 634503007042 S-adenosylmethionine binding site [chemical binding]; other site 634503007043 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 634503007044 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 634503007045 dimer interface [polypeptide binding]; other site 634503007046 active site 634503007047 Uncharacterized conserved protein [Function unknown]; Region: COG4121 634503007048 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 634503007049 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 634503007050 YfcL protein; Region: YfcL; pfam08891 634503007051 Protein of unknown function, DUF462; Region: DUF462; cl01190 634503007052 hypothetical protein; Provisional; Region: PRK10621 634503007053 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 634503007054 ShET2 enterotoxin, N-terminal region; Region: Toxin_15; pfam07906 634503007055 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 634503007056 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634503007057 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 634503007058 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503007059 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503007060 MULE transposase domain; Region: MULE; pfam10551 634503007061 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634503007062 Protein of unknown function (DUF770); Region: DUF770; pfam05591 634503007063 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 634503007064 Protein of unknown function (DUF877); Region: DUF877; pfam05943 634503007065 Protein of unknown function (DUF796); Region: DUF796; pfam05638 634503007066 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 634503007067 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 634503007068 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 634503007069 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 634503007070 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 634503007071 Clp amino terminal domain; Region: Clp_N; pfam02861 634503007072 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 634503007073 Walker A motif; other site 634503007074 ATP binding site [chemical binding]; other site 634503007075 Walker B motif; other site 634503007076 arginine finger; other site 634503007077 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 634503007078 ATP binding site [chemical binding]; other site 634503007079 Walker B motif; other site 634503007080 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 634503007081 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 634503007082 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 634503007083 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 634503007084 PAAR motif; Region: PAAR_motif; cl15808 634503007085 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 634503007086 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 634503007087 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 634503007088 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 634503007089 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 634503007090 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 634503007091 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 634503007092 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 634503007093 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 634503007094 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 634503007095 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 634503007096 Tetramer interface [polypeptide binding]; other site 634503007097 active site 634503007098 FMN-binding site [chemical binding]; other site 634503007099 HemK family putative methylases; Region: hemK_fam; TIGR00536 634503007100 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 634503007101 S-adenosylmethionine binding site [chemical binding]; other site 634503007102 hypothetical protein; Provisional; Region: PRK04946 634503007103 Smr domain; Region: Smr; pfam01713 634503007104 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 634503007105 catalytic core [active] 634503007106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 634503007107 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 634503007108 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 634503007109 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 634503007110 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 634503007111 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 634503007112 binding surface 634503007113 TPR motif; other site 634503007114 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 634503007115 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 634503007116 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 634503007117 catalytic residues [active] 634503007118 central insert; other site 634503007119 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 634503007120 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 634503007121 Heme exporter protein D (CcmD); Region: CcmD; cl11475 634503007122 heme exporter protein CcmC; Region: ccmC; TIGR01191 634503007123 heme exporter protein CcmB; Region: ccmB; TIGR01190 634503007124 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 634503007125 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 634503007126 Walker A/P-loop; other site 634503007127 ATP binding site [chemical binding]; other site 634503007128 Q-loop/lid; other site 634503007129 ABC transporter signature motif; other site 634503007130 Walker B; other site 634503007131 D-loop; other site 634503007132 H-loop/switch region; other site 634503007133 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 634503007134 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634503007135 HlyD family secretion protein; Region: HlyD_3; pfam13437 634503007136 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634503007137 Invasion protein B family; Region: Invas_SpaK; cl04129 634503007138 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503007139 MULE transposase domain; Region: MULE; pfam10551 634503007140 Integrase core domain; Region: rve_3; pfam13683 634503007141 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 634503007142 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 634503007143 active site residue [active] 634503007144 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 634503007145 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 634503007146 dimerization interface [polypeptide binding]; other site 634503007147 putative DNA binding site [nucleotide binding]; other site 634503007148 putative Zn2+ binding site [ion binding]; other site 634503007149 Transglycosylase SLT domain; Region: SLT_2; pfam13406 634503007150 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 634503007151 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634503007152 catalytic residue [active] 634503007153 carbon starvation protein A; Provisional; Region: PRK15015 634503007154 Carbon starvation protein CstA; Region: CstA; pfam02554 634503007155 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 634503007156 Uncharacterized small protein [Function unknown]; Region: COG2879 634503007157 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 634503007158 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 634503007159 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 634503007160 leucine export protein LeuE; Provisional; Region: PRK10958 634503007161 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 634503007162 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634503007163 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634503007164 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 634503007165 secondary substrate binding site; other site 634503007166 primary substrate binding site; other site 634503007167 inhibition loop; other site 634503007168 dimerization interface [polypeptide binding]; other site 634503007169 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 634503007170 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634503007171 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634503007172 Walker A/P-loop; other site 634503007173 ATP binding site [chemical binding]; other site 634503007174 ABC transporter signature motif; other site 634503007175 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634503007176 Walker B; other site 634503007177 ABC transporter; Region: ABC_tran_2; pfam12848 634503007178 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634503007179 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634503007180 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503007181 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 634503007182 dimerization interface [polypeptide binding]; other site 634503007183 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 634503007184 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 634503007185 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 634503007186 dimerization interface [polypeptide binding]; other site 634503007187 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 634503007188 dimer interface [polypeptide binding]; other site 634503007189 putative CheW interface [polypeptide binding]; other site 634503007190 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 634503007191 active site 634503007192 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 634503007193 DJ-1 family protein; Region: not_thiJ; TIGR01383 634503007194 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 634503007195 conserved cys residue [active] 634503007196 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 634503007197 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 634503007198 intersubunit interface [polypeptide binding]; other site 634503007199 active site 634503007200 zinc binding site [ion binding]; other site 634503007201 Na+ binding site [ion binding]; other site 634503007202 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 634503007203 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 634503007204 Sulfatase; Region: Sulfatase; pfam00884 634503007205 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 634503007206 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 634503007207 FeS/SAM binding site; other site 634503007208 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 634503007209 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 634503007210 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 634503007211 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 634503007212 active site 634503007213 dimer interface [polypeptide binding]; other site 634503007214 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 634503007215 active pocket/dimerization site; other site 634503007216 active site 634503007217 phosphorylation site [posttranslational modification] 634503007218 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 634503007219 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 634503007220 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 634503007221 active site 634503007222 phosphorylation site [posttranslational modification] 634503007223 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 634503007224 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 634503007225 dimer interface [polypeptide binding]; other site 634503007226 active site 634503007227 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 634503007228 putative active site [active] 634503007229 tagatose 6-phosphate aldolase subunit KbaZ; Provisional; Region: PRK15458 634503007230 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 634503007231 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 634503007232 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 634503007233 Protein of unknown function (DUF808); Region: DUF808; pfam05661 634503007234 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 634503007235 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 634503007236 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 634503007237 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 634503007238 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 634503007239 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 634503007240 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 634503007241 FMN binding site [chemical binding]; other site 634503007242 active site 634503007243 catalytic residues [active] 634503007244 substrate binding site [chemical binding]; other site 634503007245 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 634503007246 excinuclease ABC subunit B; Provisional; Region: PRK05298 634503007247 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 634503007248 ATP binding site [chemical binding]; other site 634503007249 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 634503007250 nucleotide binding region [chemical binding]; other site 634503007251 ATP-binding site [chemical binding]; other site 634503007252 Ultra-violet resistance protein B; Region: UvrB; pfam12344 634503007253 UvrB/uvrC motif; Region: UVR; pfam02151 634503007254 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 634503007255 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 634503007256 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 634503007257 S-adenosylmethionine binding site [chemical binding]; other site 634503007258 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 634503007259 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 634503007260 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634503007261 catalytic residue [active] 634503007262 biotin synthase; Provisional; Region: PRK15108 634503007263 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 634503007264 FeS/SAM binding site; other site 634503007265 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 634503007266 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 634503007267 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 634503007268 inhibitor-cofactor binding pocket; inhibition site 634503007269 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503007270 catalytic residue [active] 634503007271 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 634503007272 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 634503007273 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 634503007274 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 634503007275 active site 634503007276 motif I; other site 634503007277 motif II; other site 634503007278 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 634503007279 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 634503007280 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634503007281 Walker A/P-loop; other site 634503007282 ATP binding site [chemical binding]; other site 634503007283 Q-loop/lid; other site 634503007284 ABC transporter signature motif; other site 634503007285 Walker B; other site 634503007286 D-loop; other site 634503007287 H-loop/switch region; other site 634503007288 TOBE domain; Region: TOBE; cl01440 634503007289 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 634503007290 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 634503007291 dimer interface [polypeptide binding]; other site 634503007292 conserved gate region; other site 634503007293 putative PBP binding loops; other site 634503007294 ABC-ATPase subunit interface; other site 634503007295 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 634503007296 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 634503007297 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 634503007298 putative active site [active] 634503007299 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 634503007300 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 634503007301 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 634503007302 molybdenum-pterin binding domain; Region: Mop; TIGR00638 634503007303 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 634503007304 CAAX protease self-immunity; Region: Abi; pfam02517 634503007305 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 634503007306 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 634503007307 NAD binding site [chemical binding]; other site 634503007308 homodimer interface [polypeptide binding]; other site 634503007309 active site 634503007310 substrate binding site [chemical binding]; other site 634503007311 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 634503007312 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 634503007313 dimer interface [polypeptide binding]; other site 634503007314 active site 634503007315 galactokinase; Provisional; Region: PRK05101 634503007316 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 634503007317 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 634503007318 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 634503007319 active site 634503007320 catalytic residues [active] 634503007321 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 634503007322 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 634503007323 transmembrane helices; other site 634503007324 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 634503007325 catalytic core [active] 634503007326 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 634503007327 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 634503007328 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 634503007329 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503007330 MULE transposase domain; Region: MULE; pfam10551 634503007331 tol-pal system protein YbgF; Provisional; Region: PRK10803 634503007332 Tetratricopeptide repeat; Region: TPR_6; pfam13174 634503007333 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 634503007334 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 634503007335 ligand binding site [chemical binding]; other site 634503007336 translocation protein TolB; Provisional; Region: tolB; PRK03629 634503007337 TolB amino-terminal domain; Region: TolB_N; pfam04052 634503007338 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 634503007339 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 634503007340 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 634503007341 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 634503007342 TolA C-terminal; Region: TolA; pfam06519 634503007343 colicin uptake protein TolR; Provisional; Region: PRK11024 634503007344 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634503007345 colicin uptake protein TolQ; Provisional; Region: PRK10801 634503007346 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 634503007347 active site 634503007348 hypothetical protein; Provisional; Region: PRK10588 634503007349 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 634503007350 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 634503007351 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 634503007352 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 634503007353 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 634503007354 CoA binding domain; Region: CoA_binding; pfam02629 634503007355 CoA-ligase; Region: Ligase_CoA; pfam00549 634503007356 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 634503007357 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 634503007358 CoA-ligase; Region: Ligase_CoA; pfam00549 634503007359 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 634503007360 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 634503007361 E3 interaction surface; other site 634503007362 lipoyl attachment site [posttranslational modification]; other site 634503007363 e3 binding domain; Region: E3_binding; pfam02817 634503007364 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 634503007365 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 634503007366 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 634503007367 TPP-binding site [chemical binding]; other site 634503007368 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 634503007369 PYR/PP interface [polypeptide binding]; other site 634503007370 dimer interface [polypeptide binding]; other site 634503007371 TPP binding site [chemical binding]; other site 634503007372 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 634503007373 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 634503007374 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 634503007375 L-aspartate oxidase; Provisional; Region: PRK06175 634503007376 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 634503007377 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 634503007378 SdhC subunit interface [polypeptide binding]; other site 634503007379 proximal heme binding site [chemical binding]; other site 634503007380 cardiolipin binding site; other site 634503007381 Iron-sulfur protein interface; other site 634503007382 proximal quinone binding site [chemical binding]; other site 634503007383 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 634503007384 Iron-sulfur protein interface; other site 634503007385 proximal quinone binding site [chemical binding]; other site 634503007386 SdhD (CybS) interface [polypeptide binding]; other site 634503007387 proximal heme binding site [chemical binding]; other site 634503007388 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 634503007389 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 634503007390 dimer interface [polypeptide binding]; other site 634503007391 active site 634503007392 citrylCoA binding site [chemical binding]; other site 634503007393 NADH binding [chemical binding]; other site 634503007394 cationic pore residues; other site 634503007395 oxalacetate/citrate binding site [chemical binding]; other site 634503007396 coenzyme A binding site [chemical binding]; other site 634503007397 catalytic triad [active] 634503007398 endonuclease VIII; Provisional; Region: PRK10445 634503007399 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 634503007400 DNA binding site [nucleotide binding] 634503007401 catalytic residue [active] 634503007402 putative catalytic residues [active] 634503007403 H2TH interface [polypeptide binding]; other site 634503007404 intercalation triad [nucleotide binding]; other site 634503007405 substrate specificity determining residue; other site 634503007406 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 634503007407 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 634503007408 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634503007409 Coenzyme A binding pocket [chemical binding]; other site 634503007410 hypothetical protein; Provisional; Region: PRK10220 634503007411 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 634503007412 PhnA protein; Region: PhnA; pfam03831 634503007413 Autoinducer binding domain; Region: Autoind_bind; pfam03472 634503007414 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 634503007415 DNA binding residues [nucleotide binding] 634503007416 dimerization interface [polypeptide binding]; other site 634503007417 Autoinducer synthetase; Region: Autoind_synth; pfam00765 634503007418 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634503007419 Uncharacterized conserved protein [Function unknown]; Region: COG0327 634503007420 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 634503007421 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 634503007422 cAMP phosphodiesterases class-II; Region: PDEase_II; cl17776 634503007423 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 634503007424 DNA photolyase; Region: DNA_photolyase; pfam00875 634503007425 Protein of unknown function (DUF523); Region: DUF523; pfam04463 634503007426 Uncharacterized conserved protein [Function unknown]; Region: COG3272 634503007427 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 634503007428 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 634503007429 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 634503007430 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 634503007431 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 634503007432 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 634503007433 sensor protein KdpD; Provisional; Region: PRK10490 634503007434 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 634503007435 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 634503007436 Ligand Binding Site [chemical binding]; other site 634503007437 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 634503007438 GAF domain; Region: GAF_3; pfam13492 634503007439 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 634503007440 dimer interface [polypeptide binding]; other site 634503007441 phosphorylation site [posttranslational modification] 634503007442 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 634503007443 ATP binding site [chemical binding]; other site 634503007444 Mg2+ binding site [ion binding]; other site 634503007445 G-X-G motif; other site 634503007446 Response regulator receiver domain; Region: Response_reg; pfam00072 634503007447 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 634503007448 active site 634503007449 phosphorylation site [posttranslational modification] 634503007450 intermolecular recognition site; other site 634503007451 dimerization interface [polypeptide binding]; other site 634503007452 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 634503007453 phosphoglucomutase; Validated; Region: PRK07564 634503007454 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 634503007455 active site 634503007456 substrate binding site [chemical binding]; other site 634503007457 metal binding site [ion binding]; metal-binding site 634503007458 replication initiation regulator SeqA; Provisional; Region: PRK11187 634503007459 acyl-CoA esterase; Provisional; Region: PRK10673 634503007460 PGAP1-like protein; Region: PGAP1; pfam07819 634503007461 LexA regulated protein; Provisional; Region: PRK11675 634503007462 flavodoxin FldA; Validated; Region: PRK09267 634503007463 ferric uptake regulator; Provisional; Region: fur; PRK09462 634503007464 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 634503007465 metal binding site 2 [ion binding]; metal-binding site 634503007466 putative DNA binding helix; other site 634503007467 metal binding site 1 [ion binding]; metal-binding site 634503007468 dimer interface [polypeptide binding]; other site 634503007469 structural Zn2+ binding site [ion binding]; other site 634503007470 Transposase; Region: DDE_Tnp_ISL3; pfam01610 634503007471 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503007472 MULE transposase domain; Region: MULE; pfam10551 634503007473 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 634503007474 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 634503007475 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 634503007476 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a...; Region: GH20_Sm-chitobiase-like; cd06569 634503007477 active site 634503007478 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 634503007479 YbfN-like lipoprotein; Region: YbfN; pfam13982 634503007480 outer membrane porin, OprD family; Region: OprD; pfam03573 634503007481 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 634503007482 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634503007483 active site 634503007484 HIGH motif; other site 634503007485 nucleotide binding site [chemical binding]; other site 634503007486 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 634503007487 KMSKS motif; other site 634503007488 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 634503007489 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 634503007490 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 634503007491 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 634503007492 active site turn [active] 634503007493 phosphorylation site [posttranslational modification] 634503007494 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 634503007495 HPr interaction site; other site 634503007496 glycerol kinase (GK) interaction site [polypeptide binding]; other site 634503007497 active site 634503007498 phosphorylation site [posttranslational modification] 634503007499 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 634503007500 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 634503007501 active site 634503007502 trimer interface [polypeptide binding]; other site 634503007503 allosteric site; other site 634503007504 active site lid [active] 634503007505 hexamer (dimer of trimers) interface [polypeptide binding]; other site 634503007506 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 634503007507 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 634503007508 active site 634503007509 dimer interface [polypeptide binding]; other site 634503007510 MarR family; Region: MarR; pfam01047 634503007511 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 634503007512 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 634503007513 nucleotide binding site [chemical binding]; other site 634503007514 alanyl-tRNA synthetase; Provisional; Region: alaS; PRK13902 634503007515 UMP phosphatase; Provisional; Region: PRK10444 634503007516 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 634503007517 active site 634503007518 motif I; other site 634503007519 motif II; other site 634503007520 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 634503007521 asparagine synthetase B; Provisional; Region: asnB; PRK09431 634503007522 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 634503007523 active site 634503007524 dimer interface [polypeptide binding]; other site 634503007525 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 634503007526 Ligand Binding Site [chemical binding]; other site 634503007527 Molecular Tunnel; other site 634503007528 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 634503007529 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 634503007530 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 634503007531 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 634503007532 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 634503007533 FeS/SAM binding site; other site 634503007534 TRAM domain; Region: TRAM; pfam01938 634503007535 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 634503007536 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 634503007537 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 634503007538 PhoH-like protein; Region: PhoH; pfam02562 634503007539 metal-binding heat shock protein; Provisional; Region: PRK00016 634503007540 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 634503007541 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 634503007542 Transporter associated domain; Region: CorC_HlyC; smart01091 634503007543 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 634503007544 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 634503007545 putative active site [active] 634503007546 catalytic triad [active] 634503007547 putative dimer interface [polypeptide binding]; other site 634503007548 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 634503007549 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 634503007550 substrate binding pocket [chemical binding]; other site 634503007551 membrane-bound complex binding site; other site 634503007552 hinge residues; other site 634503007553 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 634503007554 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 634503007555 dimer interface [polypeptide binding]; other site 634503007556 conserved gate region; other site 634503007557 putative PBP binding loops; other site 634503007558 ABC-ATPase subunit interface; other site 634503007559 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 634503007560 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 634503007561 dimer interface [polypeptide binding]; other site 634503007562 conserved gate region; other site 634503007563 putative PBP binding loops; other site 634503007564 ABC-ATPase subunit interface; other site 634503007565 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 634503007566 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 634503007567 Walker A/P-loop; other site 634503007568 ATP binding site [chemical binding]; other site 634503007569 Q-loop/lid; other site 634503007570 ABC transporter signature motif; other site 634503007571 Walker B; other site 634503007572 D-loop; other site 634503007573 H-loop/switch region; other site 634503007574 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 634503007575 hypothetical protein; Provisional; Region: PRK11032 634503007576 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 634503007577 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 634503007578 HIGH motif; other site 634503007579 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 634503007580 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634503007581 active site 634503007582 KMSKS motif; other site 634503007583 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 634503007584 tRNA binding surface [nucleotide binding]; other site 634503007585 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 634503007586 Lipopolysaccharide-assembly; Region: LptE; cl01125 634503007587 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 634503007588 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 634503007589 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 634503007590 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 634503007591 active site 634503007592 (T/H)XGH motif; other site 634503007593 ribosome-associated protein; Provisional; Region: PRK11538 634503007594 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 634503007595 penicillin-binding protein 2; Provisional; Region: PRK10795 634503007596 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 634503007597 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 634503007598 cell wall shape-determining protein; Provisional; Region: PRK10794 634503007599 rare lipoprotein A; Provisional; Region: PRK10672 634503007600 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 634503007601 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 634503007602 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 634503007603 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 634503007604 hypothetical protein; Provisional; Region: PRK04998 634503007605 lipoate-protein ligase B; Provisional; Region: PRK14342 634503007606 lipoyl synthase; Provisional; Region: PRK05481 634503007607 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 634503007608 FeS/SAM binding site; other site 634503007609 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 634503007610 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 634503007611 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 634503007612 active site 634503007613 catalytic tetrad [active] 634503007614 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 634503007615 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 634503007616 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 634503007617 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634503007618 catalytic residue [active] 634503007619 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 634503007620 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 634503007621 acyl-activating enzyme (AAE) consensus motif; other site 634503007622 putative AMP binding site [chemical binding]; other site 634503007623 putative active site [active] 634503007624 putative CoA binding site [chemical binding]; other site 634503007625 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 634503007626 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 634503007627 substrate binding site [chemical binding]; other site 634503007628 oxyanion hole (OAH) forming residues; other site 634503007629 trimer interface [polypeptide binding]; other site 634503007630 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 634503007631 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 634503007632 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 634503007633 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 634503007634 acyl-activating enzyme (AAE) consensus motif; other site 634503007635 acyl-activating enzyme (AAE) consensus motif; other site 634503007636 putative AMP binding site [chemical binding]; other site 634503007637 putative active site [active] 634503007638 putative CoA binding site [chemical binding]; other site 634503007639 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 634503007640 CoA-transferase family III; Region: CoA_transf_3; pfam02515 634503007641 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 634503007642 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 634503007643 active site 634503007644 L-carnitine/gamma-butyrobetaine antiporter; Provisional; Region: PRK03356 634503007645 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 634503007646 Ligand binding site [chemical binding]; other site 634503007647 Electron transfer flavoprotein domain; Region: ETF; pfam01012 634503007648 putative electron transfer flavoprotein FixB; Provisional; Region: fixB; PRK03363 634503007649 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 634503007650 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 634503007651 putative oxidoreductase FixC; Provisional; Region: PRK10157 634503007652 ferredoxin-like protein FixX; Provisional; Region: PRK15449 634503007653 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 634503007654 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 634503007655 putative substrate translocation pore; other site 634503007656 acetyl esterase; Provisional; Region: PRK10162 634503007657 DNA-binding transcriptional activator CaiF; Provisional; Region: PRK11476 634503007658 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 634503007659 Methyltransferase domain; Region: Methyltransf_31; pfam13847 634503007660 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 634503007661 S-adenosylmethionine binding site [chemical binding]; other site 634503007662 molybdenum transport protein ModD; Provisional; Region: PRK06096 634503007663 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 634503007664 dimerization interface [polypeptide binding]; other site 634503007665 active site 634503007666 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 634503007667 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 634503007668 Homeodomain-like domain; Region: HTH_23; pfam13384 634503007669 Winged helix-turn helix; Region: HTH_29; pfam13551 634503007670 Homeodomain-like domain; Region: HTH_32; pfam13565 634503007671 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 634503007672 DDE superfamily endonuclease; Region: DDE_3; pfam13358 634503007673 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 634503007674 Invasin, domain 3; Region: Invasin_D3; pfam09134 634503007675 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 634503007676 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 634503007677 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 634503007678 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 634503007679 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 634503007680 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 634503007681 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 634503007682 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 634503007683 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 634503007684 ParB-like nuclease domain; Region: ParBc; cl02129 634503007685 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 634503007686 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 634503007687 Active Sites [active] 634503007688 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 634503007689 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 634503007690 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 634503007691 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 634503007692 Integrase core domain; Region: rve_2; pfam13333 634503007693 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 634503007694 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 634503007695 Transposase; Region: HTH_Tnp_1; pfam01527 634503007696 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 634503007697 ParB-like nuclease domain; Region: ParBc; pfam02195 634503007698 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 634503007699 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 634503007700 Active Sites [active] 634503007701 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 634503007702 potassium uptake protein; Region: kup; TIGR00794 634503007703 K+ potassium transporter; Region: K_trans; pfam02705 634503007704 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 634503007705 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 634503007706 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 634503007707 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 634503007708 Response regulator receiver domain; Region: Response_reg; pfam00072 634503007709 active site 634503007710 intermolecular recognition site; other site 634503007711 dimerization interface [polypeptide binding]; other site 634503007712 Antimicrobial peptide resistance and lipid A acylation protein PagP; Region: PagP; cl06181 634503007713 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 634503007714 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 634503007715 CHAP domain; Region: CHAP; pfam05257 634503007716 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 634503007717 HdeA/HdeB family; Region: HdeA; cl05752 634503007718 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 634503007719 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 634503007720 putative ion selectivity filter; other site 634503007721 putative pore gating glutamate residue; other site 634503007722 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 634503007723 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 634503007724 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 634503007725 homodimer interface [polypeptide binding]; other site 634503007726 NADP binding site [chemical binding]; other site 634503007727 substrate binding site [chemical binding]; other site 634503007728 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503007729 MULE transposase domain; Region: MULE; pfam10551 634503007730 ribosome-associated protein; Provisional; Region: PRK11507 634503007731 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 634503007732 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634503007733 active site 634503007734 HIGH motif; other site 634503007735 nucleotide binding site [chemical binding]; other site 634503007736 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 634503007737 KMSKS motif; other site 634503007738 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 634503007739 tRNA binding surface [nucleotide binding]; other site 634503007740 anticodon binding site; other site 634503007741 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 634503007742 substrate binding site [chemical binding]; other site 634503007743 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 634503007744 putative active site [active] 634503007745 putative metal binding site [ion binding]; other site 634503007746 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503007747 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 634503007748 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 634503007749 ATP-grasp domain; Region: ATP-grasp; pfam02222 634503007750 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 634503007751 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 634503007752 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 634503007753 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 634503007754 Walker A/P-loop; other site 634503007755 ATP binding site [chemical binding]; other site 634503007756 Q-loop/lid; other site 634503007757 ABC transporter signature motif; other site 634503007758 Walker B; other site 634503007759 D-loop; other site 634503007760 H-loop/switch region; other site 634503007761 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 634503007762 active site 634503007763 catalytic triad [active] 634503007764 oxyanion hole [active] 634503007765 switch loop; other site 634503007766 oxidoreductase; Provisional; Region: PRK08017 634503007767 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 634503007768 NADP binding site [chemical binding]; other site 634503007769 active site 634503007770 steroid binding site; other site 634503007771 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 634503007772 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 634503007773 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 634503007774 hypothetical protein; Provisional; Region: PRK10519 634503007775 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 634503007776 hypothetical protein; Provisional; Region: PRK07338 634503007777 metal binding site [ion binding]; metal-binding site 634503007778 dimer interface [polypeptide binding]; other site 634503007779 Protein of unknown function (DUF465); Region: DUF465; cl01070 634503007780 enolase; Provisional; Region: eno; PRK00077 634503007781 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 634503007782 dimer interface [polypeptide binding]; other site 634503007783 metal binding site [ion binding]; metal-binding site 634503007784 substrate binding pocket [chemical binding]; other site 634503007785 CTP synthetase; Validated; Region: pyrG; PRK05380 634503007786 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 634503007787 Catalytic site [active] 634503007788 active site 634503007789 UTP binding site [chemical binding]; other site 634503007790 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 634503007791 active site 634503007792 putative oxyanion hole; other site 634503007793 catalytic triad [active] 634503007794 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 634503007795 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 634503007796 homodimer interface [polypeptide binding]; other site 634503007797 metal binding site [ion binding]; metal-binding site 634503007798 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 634503007799 homodimer interface [polypeptide binding]; other site 634503007800 active site 634503007801 putative chemical substrate binding site [chemical binding]; other site 634503007802 metal binding site [ion binding]; metal-binding site 634503007803 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 634503007804 HD domain; Region: HD_4; pfam13328 634503007805 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 634503007806 synthetase active site [active] 634503007807 NTP binding site [chemical binding]; other site 634503007808 metal binding site [ion binding]; metal-binding site 634503007809 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 634503007810 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 634503007811 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 634503007812 TRAM domain; Region: TRAM; pfam01938 634503007813 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 634503007814 S-adenosylmethionine binding site [chemical binding]; other site 634503007815 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 634503007816 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 634503007817 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 634503007818 dimerization interface [polypeptide binding]; other site 634503007819 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 634503007820 dimer interface [polypeptide binding]; other site 634503007821 phosphorylation site [posttranslational modification] 634503007822 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 634503007823 ATP binding site [chemical binding]; other site 634503007824 Mg2+ binding site [ion binding]; other site 634503007825 G-X-G motif; other site 634503007826 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 634503007827 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 634503007828 active site 634503007829 phosphorylation site [posttranslational modification] 634503007830 intermolecular recognition site; other site 634503007831 dimerization interface [polypeptide binding]; other site 634503007832 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 634503007833 putative binding surface; other site 634503007834 active site 634503007835 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 634503007836 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 634503007837 active site 634503007838 hydrophilic channel; other site 634503007839 dimerization interface [polypeptide binding]; other site 634503007840 catalytic residues [active] 634503007841 active site lid [active] 634503007842 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 634503007843 Recombination protein O N terminal; Region: RecO_N; pfam11967 634503007844 Recombination protein O C terminal; Region: RecO_C; pfam02565 634503007845 GTPase Era; Reviewed; Region: era; PRK00089 634503007846 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 634503007847 G1 box; other site 634503007848 GTP/Mg2+ binding site [chemical binding]; other site 634503007849 Switch I region; other site 634503007850 G2 box; other site 634503007851 Switch II region; other site 634503007852 G3 box; other site 634503007853 G4 box; other site 634503007854 G5 box; other site 634503007855 KH domain; Region: KH_2; pfam07650 634503007856 ribonuclease III; Reviewed; Region: rnc; PRK00102 634503007857 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 634503007858 dimerization interface [polypeptide binding]; other site 634503007859 active site 634503007860 metal binding site [ion binding]; metal-binding site 634503007861 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 634503007862 dsRNA binding site [nucleotide binding]; other site 634503007863 signal peptidase I; Provisional; Region: PRK10861 634503007864 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 634503007865 Catalytic site [active] 634503007866 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 634503007867 GTP-binding protein LepA; Provisional; Region: PRK05433 634503007868 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 634503007869 G1 box; other site 634503007870 putative GEF interaction site [polypeptide binding]; other site 634503007871 GTP/Mg2+ binding site [chemical binding]; other site 634503007872 Switch I region; other site 634503007873 G2 box; other site 634503007874 G3 box; other site 634503007875 Switch II region; other site 634503007876 G4 box; other site 634503007877 G5 box; other site 634503007878 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 634503007879 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 634503007880 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 634503007881 SoxR reducing system protein RseC; Provisional; Region: PRK10862 634503007882 anti-sigma E factor; Provisional; Region: rseB; PRK09455 634503007883 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 634503007884 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 634503007885 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 634503007886 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 634503007887 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 634503007888 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634503007889 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 634503007890 DNA binding residues [nucleotide binding] 634503007891 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 634503007892 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 634503007893 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 634503007894 S-adenosylmethionine binding site [chemical binding]; other site 634503007895 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 634503007896 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 634503007897 ATP binding site [chemical binding]; other site 634503007898 Mg++ binding site [ion binding]; other site 634503007899 motif III; other site 634503007900 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 634503007901 nucleotide binding region [chemical binding]; other site 634503007902 ATP-binding site [chemical binding]; other site 634503007903 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 634503007904 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 634503007905 DNA-binding interface [nucleotide binding]; DNA binding site 634503007906 Winged helix-turn helix; Region: HTH_29; pfam13551 634503007907 HTH-like domain; Region: HTH_21; pfam13276 634503007908 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 634503007909 Integrase core domain; Region: rve; pfam00665 634503007910 Integrase core domain; Region: rve_3; pfam13683 634503007911 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503007912 MULE transposase domain; Region: MULE; pfam10551 634503007913 haemagglutination activity domain; Region: Haemagg_act; pfam05860 634503007914 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 634503007915 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 634503007916 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 634503007917 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 634503007918 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 634503007919 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 634503007920 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 634503007921 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 634503007922 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 634503007923 ligand binding site [chemical binding]; other site 634503007924 active site 634503007925 UGI interface [polypeptide binding]; other site 634503007926 catalytic site [active] 634503007927 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 634503007928 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 634503007929 dimer interface [polypeptide binding]; other site 634503007930 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 634503007931 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 634503007932 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 634503007933 recombination and repair protein; Provisional; Region: PRK10869 634503007934 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 634503007935 Walker A/P-loop; other site 634503007936 ATP binding site [chemical binding]; other site 634503007937 Q-loop/lid; other site 634503007938 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 634503007939 ABC transporter signature motif; other site 634503007940 Walker B; other site 634503007941 D-loop; other site 634503007942 H-loop/switch region; other site 634503007943 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 634503007944 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 634503007945 hypothetical protein; Validated; Region: PRK01777 634503007946 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 634503007947 putative coenzyme Q binding site [chemical binding]; other site 634503007948 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 634503007949 SmpB-tmRNA interface; other site 634503007950 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 634503007951 Phage polarity suppression protein (Psu); Region: Psu; pfam07455 634503007952 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 634503007953 active site 634503007954 catalytic residues [active] 634503007955 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 634503007956 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634503007957 Walker A/P-loop; other site 634503007958 ATP binding site [chemical binding]; other site 634503007959 Q-loop/lid; other site 634503007960 ABC transporter signature motif; other site 634503007961 Walker B; other site 634503007962 D-loop; other site 634503007963 H-loop/switch region; other site 634503007964 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 634503007965 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 634503007966 FeS/SAM binding site; other site 634503007967 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 634503007968 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 634503007969 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 634503007970 homotrimer interaction site [polypeptide binding]; other site 634503007971 putative active site [active] 634503007972 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 634503007973 Ribonuclease T2 family; Region: Ribonuclease_T2; pfam00445 634503007974 CAS motifs; other site 634503007975 active site 634503007976 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 634503007977 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 634503007978 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 634503007979 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 634503007980 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 634503007981 gating phenylalanine in ion channel; other site 634503007982 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 634503007983 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503007984 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 634503007985 putative dimerization interface [polypeptide binding]; other site 634503007986 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 634503007987 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 634503007988 dimerization interface [polypeptide binding]; other site 634503007989 DPS ferroxidase diiron center [ion binding]; other site 634503007990 ion pore; other site 634503007991 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 634503007992 transcriptional repressor MprA; Provisional; Region: PRK10870 634503007993 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 634503007994 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 634503007995 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634503007996 HlyD family secretion protein; Region: HlyD_3; pfam13437 634503007997 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 634503007998 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 634503007999 putative substrate translocation pore; other site 634503008000 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 634503008001 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 634503008002 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 634503008003 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 634503008004 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 634503008005 ABC-ATPase subunit interface; other site 634503008006 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 634503008007 ABC-ATPase subunit interface; other site 634503008008 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 634503008009 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 634503008010 Walker A/P-loop; other site 634503008011 ATP binding site [chemical binding]; other site 634503008012 Q-loop/lid; other site 634503008013 ABC transporter signature motif; other site 634503008014 Walker B; other site 634503008015 D-loop; other site 634503008016 H-loop/switch region; other site 634503008017 serine endoprotease; Provisional; Region: PRK10942 634503008018 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 634503008019 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 634503008020 protein binding site [polypeptide binding]; other site 634503008021 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 634503008022 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 634503008023 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 634503008024 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 634503008025 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 634503008026 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 634503008027 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 634503008028 cobalamin binding residues [chemical binding]; other site 634503008029 putative BtuC binding residues; other site 634503008030 dimer interface [polypeptide binding]; other site 634503008031 hypothetical protein; Provisional; Region: PRK10578 634503008032 UPF0126 domain; Region: UPF0126; pfam03458 634503008033 UPF0126 domain; Region: UPF0126; pfam03458 634503008034 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 634503008035 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 634503008036 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 634503008037 Cl- selectivity filter; other site 634503008038 Cl- binding residues [ion binding]; other site 634503008039 pore gating glutamate residue; other site 634503008040 dimer interface [polypeptide binding]; other site 634503008041 H+/Cl- coupling transport residue; other site 634503008042 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 634503008043 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 634503008044 inhibitor-cofactor binding pocket; inhibition site 634503008045 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503008046 catalytic residue [active] 634503008047 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 634503008048 Transposase, Mutator family; Region: Transposase_mut; pfam00872 634503008049 MULE transposase domain; Region: MULE; pfam10551 634503008050 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 634503008051 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 634503008052 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 634503008053 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 634503008054 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634503008055 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503008056 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503008057 portal vertex protein; Provisional; Region: Q; PHA02536 634503008058 Phage portal protein; Region: Phage_portal; pfam04860 634503008059 terminase ATPase subunit; Provisional; Region: P; PHA02535 634503008060 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 634503008061 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 634503008062 capsid protein; Provisional; Region: N; PHA02538 634503008063 terminase endonuclease subunit; Provisional; Region: M; PHA02537 634503008064 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 634503008065 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 634503008066 Protein of unknown function (DUF754); Region: DUF754; pfam05449 634503008067 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 634503008068 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 634503008069 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 634503008070 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 634503008071 non-specific DNA binding site [nucleotide binding]; other site 634503008072 salt bridge; other site 634503008073 sequence-specific DNA binding site [nucleotide binding]; other site 634503008074 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 634503008075 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 634503008076 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 634503008077 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 634503008078 baseplate assembly protein; Provisional; Region: J; PHA02568 634503008079 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 634503008080 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 634503008081 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 634503008082 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 634503008083 major tail sheath protein; Provisional; Region: FI; PHA02560 634503008084 Phage tail tube protein FII; Region: Phage_tube; cl01390 634503008085 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 634503008086 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 634503008087 LrgB-like family; Region: LrgB; cl00596 634503008088 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 634503008089 tail protein; Provisional; Region: D; PHA02561 634503008090 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 634503008091 WYL domain; Region: WYL; pfam13280 634503008092 DNA-binding transcriptional regulator; Provisional; Region: PRK09678 634503008093 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 634503008094 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 634503008095 active site 634503008096 metal binding site [ion binding]; metal-binding site 634503008097 interdomain interaction site; other site 634503008098 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 634503008099 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 634503008100 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 634503008101 integrase; Provisional; Region: PRK09692 634503008102 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 634503008103 active site 634503008104 Int/Topo IB signature motif; other site 634503008105 GMP synthase; Reviewed; Region: guaA; PRK00074 634503008106 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 634503008107 AMP/PPi binding site [chemical binding]; other site 634503008108 candidate oxyanion hole; other site 634503008109 catalytic triad [active] 634503008110 potential glutamine specificity residues [chemical binding]; other site 634503008111 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 634503008112 ATP Binding subdomain [chemical binding]; other site 634503008113 Ligand Binding sites [chemical binding]; other site 634503008114 Dimerization subdomain; other site 634503008115 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 634503008116 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 634503008117 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 634503008118 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 634503008119 active site 634503008120 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 634503008121 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 634503008122 generic binding surface II; other site 634503008123 generic binding surface I; other site 634503008124 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 634503008125 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 634503008126 TPR motif; other site 634503008127 binding surface 634503008128 Cytochrome C biogenesis protein; Region: CcmH; cl01179 634503008129 heme lyase subunit NrfE; Provisional; Region: PRK10369 634503008130 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 634503008131 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 634503008132 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 634503008133 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 634503008134 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 634503008135 Predicted permeases [General function prediction only]; Region: COG0679 634503008136 GTP-binding protein Der; Reviewed; Region: PRK00093 634503008137 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 634503008138 G1 box; other site 634503008139 GTP/Mg2+ binding site [chemical binding]; other site 634503008140 Switch I region; other site 634503008141 G2 box; other site 634503008142 Switch II region; other site 634503008143 G3 box; other site 634503008144 G4 box; other site 634503008145 G5 box; other site 634503008146 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 634503008147 G1 box; other site 634503008148 GTP/Mg2+ binding site [chemical binding]; other site 634503008149 Switch I region; other site 634503008150 G2 box; other site 634503008151 G3 box; other site 634503008152 Switch II region; other site 634503008153 G4 box; other site 634503008154 G5 box; other site 634503008155 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 634503008156 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 634503008157 Trp docking motif [polypeptide binding]; other site 634503008158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 634503008159 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 634503008160 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 634503008161 dimer interface [polypeptide binding]; other site 634503008162 motif 1; other site 634503008163 active site 634503008164 motif 2; other site 634503008165 motif 3; other site 634503008166 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 634503008167 anticodon binding site; other site 634503008168 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 634503008169 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 634503008170 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 634503008171 cytoskeletal protein RodZ; Provisional; Region: PRK10856 634503008172 Helix-turn-helix domain; Region: HTH_25; pfam13413 634503008173 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 634503008174 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 634503008175 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 634503008176 TPR motif; other site 634503008177 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 634503008178 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 634503008179 FeS/SAM binding site; other site 634503008180 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 634503008181 active site 634503008182 multimer interface [polypeptide binding]; other site 634503008183 SseB protein; Region: SseB; cl06279 634503008184 aminopeptidase B; Provisional; Region: PRK05015 634503008185 Peptidase; Region: DUF3663; pfam12404 634503008186 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 634503008187 interface (dimer of trimers) [polypeptide binding]; other site 634503008188 Substrate-binding/catalytic site; other site 634503008189 Zn-binding sites [ion binding]; other site 634503008190 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 634503008191 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 634503008192 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 634503008193 catalytic loop [active] 634503008194 iron binding site [ion binding]; other site 634503008195 chaperone protein HscA; Provisional; Region: hscA; PRK05183 634503008196 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 634503008197 nucleotide binding site [chemical binding]; other site 634503008198 putative NEF/HSP70 interaction site [polypeptide binding]; other site 634503008199 SBD interface [polypeptide binding]; other site 634503008200 co-chaperone HscB; Provisional; Region: hscB; PRK05014 634503008201 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 634503008202 HSP70 interaction site [polypeptide binding]; other site 634503008203 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 634503008204 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 634503008205 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 634503008206 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 634503008207 trimerization site [polypeptide binding]; other site 634503008208 active site 634503008209 cysteine desulfurase; Provisional; Region: PRK14012 634503008210 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 634503008211 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634503008212 catalytic residue [active] 634503008213 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 634503008214 Rrf2 family protein; Region: rrf2_super; TIGR00738 634503008215 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 634503008216 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 634503008217 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 634503008218 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 634503008219 active site 634503008220 dimerization interface [polypeptide binding]; other site 634503008221 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 634503008222 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 634503008223 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 634503008224 dimer interface [polypeptide binding]; other site 634503008225 active site 634503008226 glycine-pyridoxal phosphate binding site [chemical binding]; other site 634503008227 folate binding site [chemical binding]; other site 634503008228 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 634503008229 heme-binding site [chemical binding]; other site 634503008230 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 634503008231 FAD binding pocket [chemical binding]; other site 634503008232 FAD binding motif [chemical binding]; other site 634503008233 phosphate binding motif [ion binding]; other site 634503008234 beta-alpha-beta structure motif; other site 634503008235 NAD binding pocket [chemical binding]; other site 634503008236 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 634503008237 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 634503008238 active site 634503008239 catalytic site [active] 634503008240 substrate binding site [chemical binding]; other site 634503008241 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 634503008242 RNA/DNA hybrid binding site [nucleotide binding]; other site 634503008243 active site 634503008244 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 634503008245 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 634503008246 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 634503008247 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 634503008248 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634503008249 catalytic residue [active] 634503008250 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 634503008251 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 634503008252 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 634503008253 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503008254 MULE transposase domain; Region: MULE; pfam10551 634503008255 hypothetical protein; Provisional; Region: PRK05421 634503008256 putative catalytic site [active] 634503008257 putative metal binding site [ion binding]; other site 634503008258 putative phosphate binding site [ion binding]; other site 634503008259 putative catalytic site [active] 634503008260 putative phosphate binding site [ion binding]; other site 634503008261 putative metal binding site [ion binding]; other site 634503008262 protein disaggregation chaperone; Provisional; Region: PRK10865 634503008263 Clp amino terminal domain; Region: Clp_N; pfam02861 634503008264 Clp amino terminal domain; Region: Clp_N; pfam02861 634503008265 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 634503008266 Walker A motif; other site 634503008267 ATP binding site [chemical binding]; other site 634503008268 Walker B motif; other site 634503008269 arginine finger; other site 634503008270 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 634503008271 Walker A motif; other site 634503008272 ATP binding site [chemical binding]; other site 634503008273 Walker B motif; other site 634503008274 arginine finger; other site 634503008275 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 634503008276 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 634503008277 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 634503008278 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 634503008279 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 634503008280 RNA binding surface [nucleotide binding]; other site 634503008281 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 634503008282 active site 634503008283 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 634503008284 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 634503008285 30S subunit binding site; other site 634503008286 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 634503008287 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 634503008288 Prephenate dehydratase; Region: PDT; pfam00800 634503008289 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 634503008290 putative L-Phe binding site [chemical binding]; other site 634503008291 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 634503008292 Chorismate mutase type II; Region: CM_2; cl00693 634503008293 prephenate dehydrogenase; Validated; Region: PRK08507 634503008294 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 634503008295 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 634503008296 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 634503008297 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503008298 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 634503008299 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 634503008300 Protein of unknown function, DUF481; Region: DUF481; cl01213 634503008301 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 634503008302 S-adenosylmethionine binding site [chemical binding]; other site 634503008303 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 634503008304 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 634503008305 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 634503008306 RimM N-terminal domain; Region: RimM; pfam01782 634503008307 PRC-barrel domain; Region: PRC; pfam05239 634503008308 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 634503008309 signal recognition particle protein; Provisional; Region: PRK10867 634503008310 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 634503008311 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 634503008312 P loop; other site 634503008313 GTP binding site [chemical binding]; other site 634503008314 Signal peptide binding domain; Region: SRP_SPB; pfam02978 634503008315 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 634503008316 Domain of unknown function DUF21; Region: DUF21; pfam01595 634503008317 hypothetical protein; Provisional; Region: PRK11573 634503008318 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 634503008319 Transporter associated domain; Region: CorC_HlyC; smart01091 634503008320 S-ribosylhomocysteinase; Provisional; Region: PRK02260 634503008321 glutamate--cysteine ligase; Provisional; Region: PRK02107 634503008322 Predicted membrane protein [Function unknown]; Region: COG1238 634503008323 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 634503008324 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 634503008325 motif II; other site 634503008326 putative transposase OrfB; Reviewed; Region: PHA02517 634503008327 Integrase core domain; Region: rve; pfam00665 634503008328 Integrase core domain; Region: rve_3; pfam13683 634503008329 carbon storage regulator; Provisional; Region: PRK01712 634503008330 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 634503008331 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 634503008332 motif 1; other site 634503008333 active site 634503008334 motif 2; other site 634503008335 motif 3; other site 634503008336 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 634503008337 DHHA1 domain; Region: DHHA1; pfam02272 634503008338 recombination regulator RecX; Reviewed; Region: recX; PRK00117 634503008339 recombinase A; Provisional; Region: recA; PRK09354 634503008340 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 634503008341 hexamer interface [polypeptide binding]; other site 634503008342 Walker A motif; other site 634503008343 ATP binding site [chemical binding]; other site 634503008344 Walker B motif; other site 634503008345 Competence-damaged protein; Region: CinA; cl00666 634503008346 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 634503008347 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 634503008348 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 634503008349 Autotransporter beta-domain; Region: Autotransporter; smart00869 634503008350 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503008351 MULE transposase domain; Region: MULE; pfam10551 634503008352 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 634503008353 dimer interface [polypeptide binding]; other site 634503008354 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 634503008355 putative CheW interface [polypeptide binding]; other site 634503008356 acid-resistance protein; Provisional; Region: hdeB; PRK11566 634503008357 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 634503008358 MutS domain I; Region: MutS_I; pfam01624 634503008359 MutS domain II; Region: MutS_II; pfam05188 634503008360 MutS domain III; Region: MutS_III; pfam05192 634503008361 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 634503008362 Walker A/P-loop; other site 634503008363 ATP binding site [chemical binding]; other site 634503008364 Q-loop/lid; other site 634503008365 ABC transporter signature motif; other site 634503008366 Walker B; other site 634503008367 D-loop; other site 634503008368 H-loop/switch region; other site 634503008369 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 634503008370 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 634503008371 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634503008372 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 634503008373 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 634503008374 DNA binding residues [nucleotide binding] 634503008375 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 634503008376 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 634503008377 Peptidase family M23; Region: Peptidase_M23; pfam01551 634503008378 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 634503008379 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 634503008380 S-adenosylmethionine binding site [chemical binding]; other site 634503008381 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 634503008382 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 634503008383 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 634503008384 Permutation of conserved domain; other site 634503008385 active site 634503008386 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 634503008387 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 634503008388 homotrimer interaction site [polypeptide binding]; other site 634503008389 zinc binding site [ion binding]; other site 634503008390 CDP-binding sites; other site 634503008391 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 634503008392 substrate binding site; other site 634503008393 dimer interface; other site 634503008394 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 634503008395 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 634503008396 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 634503008397 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 634503008398 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 634503008399 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 634503008400 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 634503008401 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 634503008402 putative active site [active] 634503008403 Ap4A binding site [chemical binding]; other site 634503008404 nudix motif; other site 634503008405 putative metal binding site [ion binding]; other site 634503008406 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 634503008407 putative DNA-binding cleft [nucleotide binding]; other site 634503008408 putative DNA clevage site; other site 634503008409 molecular lever; other site 634503008410 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 634503008411 alkaline phosphatase; Provisional; Region: PRK10518 634503008412 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 634503008413 dimer interface [polypeptide binding]; other site 634503008414 active site 634503008415 lysophospholipid transporter LplT; Provisional; Region: PRK11195 634503008416 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 634503008417 putative substrate translocation pore; other site 634503008418 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 634503008419 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 634503008420 putative acyl-acceptor binding pocket; other site 634503008421 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 634503008422 acyl-activating enzyme (AAE) consensus motif; other site 634503008423 putative AMP binding site [chemical binding]; other site 634503008424 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 634503008425 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 634503008426 DNA binding site [nucleotide binding] 634503008427 domain linker motif; other site 634503008428 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 634503008429 dimerization interface (closed form) [polypeptide binding]; other site 634503008430 ligand binding site [chemical binding]; other site 634503008431 Transcriptional regulators [Transcription]; Region: PurR; COG1609 634503008432 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 634503008433 DNA binding site [nucleotide binding] 634503008434 domain linker motif; other site 634503008435 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 634503008436 dimerization interface (closed form) [polypeptide binding]; other site 634503008437 ligand binding site [chemical binding]; other site 634503008438 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 634503008439 4Fe-4S binding domain; Region: Fer4; cl02805 634503008440 hydrogenase 4 subunit B; Validated; Region: PRK06521 634503008441 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 634503008442 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 634503008443 NADH dehydrogenase; Region: NADHdh; cl00469 634503008444 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 634503008445 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 634503008446 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 634503008447 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 634503008448 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 634503008449 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 634503008450 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 634503008451 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 634503008452 nickel binding site [ion binding]; other site 634503008453 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 634503008454 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 634503008455 [4Fe-4S] binding site [ion binding]; other site 634503008456 molybdopterin cofactor binding site; other site 634503008457 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 634503008458 molybdopterin cofactor binding site; other site 634503008459 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 634503008460 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 634503008461 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 634503008462 Acylphosphatase; Region: Acylphosphatase; pfam00708 634503008463 HypF finger; Region: zf-HYPF; pfam07503 634503008464 HypF finger; Region: zf-HYPF; pfam07503 634503008465 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 634503008466 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 634503008467 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 634503008468 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 634503008469 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 634503008470 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 634503008471 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 634503008472 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 634503008473 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 634503008474 dimerization interface [polypeptide binding]; other site 634503008475 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 634503008476 ATP binding site [chemical binding]; other site 634503008477 formate hydrogenlyase regulatory protein HycA; Provisional; Region: PRK10198 634503008478 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 634503008479 GAF domain; Region: GAF; pfam01590 634503008480 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 634503008481 Walker A motif; other site 634503008482 ATP binding site [chemical binding]; other site 634503008483 Walker B motif; other site 634503008484 arginine finger; other site 634503008485 diaminopimelate decarboxylase; Provisional; Region: PRK11165 634503008486 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 634503008487 active site 634503008488 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 634503008489 substrate binding site [chemical binding]; other site 634503008490 catalytic residues [active] 634503008491 dimer interface [polypeptide binding]; other site 634503008492 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 634503008493 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503008494 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 634503008495 dimerization interface [polypeptide binding]; other site 634503008496 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 634503008497 Sulfatase; Region: Sulfatase; pfam00884 634503008498 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 634503008499 Autotransporter beta-domain; Region: Autotransporter; pfam03797 634503008500 Lyase, N terminal; Region: Lyase_N; pfam09092 634503008501 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cd01083 634503008502 substrate binding site [chemical binding]; other site 634503008503 catalytic residues [active] 634503008504 Lyase, N terminal; Region: Lyase_N; pfam09092 634503008505 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cl17706 634503008506 substrate binding site [chemical binding]; other site 634503008507 catalytic residues [active] 634503008508 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 634503008509 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 634503008510 putative acyl-acceptor binding pocket; other site 634503008511 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503008512 MULE transposase domain; Region: MULE; pfam10551 634503008513 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 634503008514 nudix motif; other site 634503008515 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 634503008516 thymidylate kinase; Provisional; Region: PRK13975; cl17243 634503008517 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 634503008518 FeS/SAM binding site; other site 634503008519 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 634503008520 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 634503008521 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634503008522 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 634503008523 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503008524 MULE transposase domain; Region: MULE; pfam10551 634503008525 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634503008526 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 634503008527 RTX toxin acyltransferase family; Region: HlyC; cl01131 634503008528 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 634503008529 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 634503008530 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 634503008531 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 634503008532 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 634503008533 active site 634503008534 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 634503008535 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 634503008536 dimer interface [polypeptide binding]; other site 634503008537 putative anticodon binding site; other site 634503008538 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 634503008539 motif 1; other site 634503008540 active site 634503008541 motif 2; other site 634503008542 motif 3; other site 634503008543 peptide chain release factor 2; Provisional; Region: PRK08787 634503008544 This domain is found in peptide chain release factors; Region: PCRF; smart00937 634503008545 RF-1 domain; Region: RF-1; pfam00472 634503008546 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 634503008547 DHH family; Region: DHH; pfam01368 634503008548 DHHA1 domain; Region: DHHA1; pfam02272 634503008549 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 634503008550 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 634503008551 dimerization domain [polypeptide binding]; other site 634503008552 dimer interface [polypeptide binding]; other site 634503008553 catalytic residues [active] 634503008554 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 634503008555 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 634503008556 active site 634503008557 Int/Topo IB signature motif; other site 634503008558 flavodoxin FldB; Provisional; Region: PRK12359 634503008559 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 634503008560 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 634503008561 putative global regulator; Reviewed; Region: PRK09559 634503008562 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 634503008563 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 634503008564 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 634503008565 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 634503008566 shikimate binding site; other site 634503008567 NAD(P) binding site [chemical binding]; other site 634503008568 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 634503008569 hemolysin; Provisional; Region: PRK15087 634503008570 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 634503008571 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 634503008572 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 634503008573 glycine dehydrogenase; Provisional; Region: PRK05367 634503008574 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 634503008575 tetramer interface [polypeptide binding]; other site 634503008576 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503008577 catalytic residue [active] 634503008578 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 634503008579 tetramer interface [polypeptide binding]; other site 634503008580 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503008581 catalytic residue [active] 634503008582 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 634503008583 lipoyl attachment site [posttranslational modification]; other site 634503008584 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 634503008585 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 634503008586 oxidoreductase; Provisional; Region: PRK08013 634503008587 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 634503008588 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 634503008589 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 634503008590 proline aminopeptidase P II; Provisional; Region: PRK10879 634503008591 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 634503008592 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 634503008593 active site 634503008594 hypothetical protein; Reviewed; Region: PRK01736 634503008595 Z-ring-associated protein; Provisional; Region: PRK10972 634503008596 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 634503008597 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 634503008598 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 634503008599 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 634503008600 ligand binding site [chemical binding]; other site 634503008601 NAD binding site [chemical binding]; other site 634503008602 tetramer interface [polypeptide binding]; other site 634503008603 catalytic site [active] 634503008604 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 634503008605 L-serine binding site [chemical binding]; other site 634503008606 ACT domain interface; other site 634503008607 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 634503008608 tetramer (dimer of dimers) interface [polypeptide binding]; other site 634503008609 active site 634503008610 dimer interface [polypeptide binding]; other site 634503008611 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 634503008612 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503008613 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 634503008614 putative dimerization interface [polypeptide binding]; other site 634503008615 oxidative stress defense protein; Provisional; Region: PRK11087 634503008616 Uncharacterized conserved protein [Function unknown]; Region: COG2968 634503008617 mechanosensitive channel MscS; Provisional; Region: PRK10334 634503008618 Mechanosensitive ion channel; Region: MS_channel; pfam00924 634503008619 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 634503008620 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 634503008621 active site 634503008622 intersubunit interface [polypeptide binding]; other site 634503008623 zinc binding site [ion binding]; other site 634503008624 Na+ binding site [ion binding]; other site 634503008625 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 634503008626 Phosphoglycerate kinase; Region: PGK; pfam00162 634503008627 substrate binding site [chemical binding]; other site 634503008628 hinge regions; other site 634503008629 ADP binding site [chemical binding]; other site 634503008630 catalytic site [active] 634503008631 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 634503008632 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 634503008633 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 634503008634 transketolase; Reviewed; Region: PRK12753 634503008635 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 634503008636 TPP-binding site [chemical binding]; other site 634503008637 dimer interface [polypeptide binding]; other site 634503008638 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 634503008639 PYR/PP interface [polypeptide binding]; other site 634503008640 dimer interface [polypeptide binding]; other site 634503008641 TPP binding site [chemical binding]; other site 634503008642 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634503008643 Sulfatase; Region: Sulfatase; pfam00884 634503008644 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 634503008645 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 634503008646 agmatinase; Region: agmatinase; TIGR01230 634503008647 oligomer interface [polypeptide binding]; other site 634503008648 putative active site [active] 634503008649 Mn binding site [ion binding]; other site 634503008650 arginine decarboxylase; Provisional; Region: PRK05354 634503008651 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 634503008652 dimer interface [polypeptide binding]; other site 634503008653 active site 634503008654 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 634503008655 catalytic residues [active] 634503008656 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 634503008657 S-adenosylmethionine synthetase; Validated; Region: PRK05250 634503008658 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 634503008659 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 634503008660 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 634503008661 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 634503008662 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 634503008663 putative substrate translocation pore; other site 634503008664 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 634503008665 peptidase PmbA; Provisional; Region: PRK11040 634503008666 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 634503008667 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 634503008668 hypothetical protein; Provisional; Region: PRK05255 634503008669 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 634503008670 RNAase interaction site [polypeptide binding]; other site 634503008671 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 634503008672 active site 634503008673 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 634503008674 DctM-like transporters; Region: DctM; pfam06808 634503008675 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 634503008676 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 634503008677 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 634503008678 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 634503008679 cell density-dependent motility repressor; Provisional; Region: PRK10082 634503008680 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503008681 LysR substrate binding domain; Region: LysR_substrate; pfam03466 634503008682 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 634503008683 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 634503008684 active site 634503008685 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 634503008686 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 634503008687 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 634503008688 ligand binding site [chemical binding]; other site 634503008689 flexible hinge region; other site 634503008690 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 634503008691 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 634503008692 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 634503008693 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 634503008694 nucleoside transporter; Region: 2A0110; TIGR00889 634503008695 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 634503008696 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 634503008697 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 634503008698 S-adenosylmethionine binding site [chemical binding]; other site 634503008699 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634503008700 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503008701 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 634503008702 dimerization interface [polypeptide binding]; other site 634503008703 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 634503008704 cytochrome bd-II oxidase subunit 2; Provisional; Region: PRK15028 634503008705 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 634503008706 cytochrome bd-II oxidase subunit 1; Provisional; Region: PRK15035 634503008707 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 634503008708 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 634503008709 Rubredoxin; Region: Rubredoxin; pfam00301 634503008710 iron binding site [ion binding]; other site 634503008711 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 634503008712 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 634503008713 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 634503008714 putative substrate-binding site; other site 634503008715 nickel binding site [ion binding]; other site 634503008716 hydrogenase 1 b-type cytochrome subunit; Provisional; Region: PRK10171 634503008717 hydrogenase 1 large subunit; Provisional; Region: PRK10170 634503008718 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 634503008719 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 634503008720 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 634503008721 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 634503008722 ornithine decarboxylase; Provisional; Region: PRK13578 634503008723 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 634503008724 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 634503008725 homodimer interface [polypeptide binding]; other site 634503008726 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503008727 catalytic residue [active] 634503008728 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 634503008729 putrescine transporter; Provisional; Region: potE; PRK10655 634503008730 lysine decarboxylase CadA; Provisional; Region: PRK15400 634503008731 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 634503008732 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 634503008733 homodimer interface [polypeptide binding]; other site 634503008734 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503008735 catalytic residue [active] 634503008736 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 634503008737 hypothetical protein; Provisional; Region: PRK09273 634503008738 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 634503008739 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 634503008740 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 634503008741 multiple promoter invertase; Provisional; Region: mpi; PRK13413 634503008742 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 634503008743 catalytic residues [active] 634503008744 catalytic nucleophile [active] 634503008745 Presynaptic Site I dimer interface [polypeptide binding]; other site 634503008746 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 634503008747 Synaptic Flat tetramer interface [polypeptide binding]; other site 634503008748 Synaptic Site I dimer interface [polypeptide binding]; other site 634503008749 DNA binding site [nucleotide binding] 634503008750 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 634503008751 DNA-binding interface [nucleotide binding]; DNA binding site 634503008752 Protein of unknown function (DUF796); Region: DUF796; cl01226 634503008753 alpha-galactosidase; Provisional; Region: PRK15076 634503008754 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 634503008755 NAD binding site [chemical binding]; other site 634503008756 sugar binding site [chemical binding]; other site 634503008757 divalent metal binding site [ion binding]; other site 634503008758 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 634503008759 dimer interface [polypeptide binding]; other site 634503008760 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 634503008761 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 634503008762 TM-ABC transporter signature motif; other site 634503008763 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 634503008764 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634503008765 Walker A/P-loop; other site 634503008766 ATP binding site [chemical binding]; other site 634503008767 Q-loop/lid; other site 634503008768 ABC transporter signature motif; other site 634503008769 Walker B; other site 634503008770 D-loop; other site 634503008771 H-loop/switch region; other site 634503008772 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 634503008773 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 634503008774 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 634503008775 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 634503008776 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 634503008777 putative outer membrane porin protein; Provisional; Region: PRK11379 634503008778 glucuronide transporter; Provisional; Region: PRK09848 634503008779 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 634503008780 beta-D-glucuronidase; Provisional; Region: PRK10150 634503008781 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 634503008782 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 634503008783 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 634503008784 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 634503008785 TrkA-N domain; Region: TrkA_N; pfam02254 634503008786 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 634503008787 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 634503008788 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 634503008789 amidase catalytic site [active] 634503008790 Zn binding residues [ion binding]; other site 634503008791 substrate binding site [chemical binding]; other site 634503008792 chorismate mutase; Provisional; Region: PRK08055 634503008793 Protein of unknown function DUF45; Region: DUF45; pfam01863 634503008794 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 634503008795 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 634503008796 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 634503008797 ATP binding site [chemical binding]; other site 634503008798 putative Mg++ binding site [ion binding]; other site 634503008799 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 634503008800 ADP-ribose binding site [chemical binding]; other site 634503008801 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 634503008802 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634503008803 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 634503008804 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634503008805 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 634503008806 HsdM N-terminal domain; Region: HsdM_N; pfam12161 634503008807 Methyltransferase domain; Region: Methyltransf_26; pfam13659 634503008808 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 634503008809 Predicted transcriptional regulator [Transcription]; Region: COG2944 634503008810 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 634503008811 non-specific DNA binding site [nucleotide binding]; other site 634503008812 salt bridge; other site 634503008813 sequence-specific DNA binding site [nucleotide binding]; other site 634503008814 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 634503008815 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 634503008816 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 634503008817 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 634503008818 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 634503008819 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 634503008820 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 634503008821 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 634503008822 multifunctional aminopeptidase A; Provisional; Region: PRK00913 634503008823 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 634503008824 interface (dimer of trimers) [polypeptide binding]; other site 634503008825 Substrate-binding/catalytic site; other site 634503008826 Zn-binding sites [ion binding]; other site 634503008827 DNA polymerase III subunit chi; Validated; Region: PRK05728 634503008828 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 634503008829 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 634503008830 HIGH motif; other site 634503008831 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 634503008832 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 634503008833 active site 634503008834 KMSKS motif; other site 634503008835 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 634503008836 tRNA binding surface [nucleotide binding]; other site 634503008837 anticodon binding site; other site 634503008838 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 634503008839 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 634503008840 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 634503008841 dimer interface [polypeptide binding]; other site 634503008842 conserved gate region; other site 634503008843 putative PBP binding loops; other site 634503008844 ABC-ATPase subunit interface; other site 634503008845 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 634503008846 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 634503008847 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 634503008848 Walker A/P-loop; other site 634503008849 ATP binding site [chemical binding]; other site 634503008850 Q-loop/lid; other site 634503008851 ABC transporter signature motif; other site 634503008852 Walker B; other site 634503008853 D-loop; other site 634503008854 H-loop/switch region; other site 634503008855 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 634503008856 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 634503008857 RNase E inhibitor protein; Provisional; Region: PRK11191 634503008858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3076 634503008859 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 634503008860 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 634503008861 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 634503008862 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 634503008863 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 634503008864 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 634503008865 Cysteine-rich domain; Region: CCG; pfam02754 634503008866 Cysteine-rich domain; Region: CCG; pfam02754 634503008867 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 634503008868 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 634503008869 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 634503008870 hydroxyglutarate oxidase; Provisional; Region: PRK11728 634503008871 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 634503008872 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 634503008873 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 634503008874 putative substrate translocation pore; other site 634503008875 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 634503008876 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 634503008877 active site 634503008878 catalytic site [active] 634503008879 metal binding site [ion binding]; metal-binding site 634503008880 putative glutathione S-transferase; Provisional; Region: PRK10357 634503008881 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 634503008882 putative C-terminal domain interface [polypeptide binding]; other site 634503008883 putative GSH binding site (G-site) [chemical binding]; other site 634503008884 putative dimer interface [polypeptide binding]; other site 634503008885 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 634503008886 dimer interface [polypeptide binding]; other site 634503008887 N-terminal domain interface [polypeptide binding]; other site 634503008888 putative substrate binding pocket (H-site) [chemical binding]; other site 634503008889 selenocysteine synthase; Provisional; Region: PRK04311 634503008890 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 634503008891 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 634503008892 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634503008893 catalytic residue [active] 634503008894 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 634503008895 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 634503008896 G1 box; other site 634503008897 putative GEF interaction site [polypeptide binding]; other site 634503008898 GTP/Mg2+ binding site [chemical binding]; other site 634503008899 Switch I region; other site 634503008900 G2 box; other site 634503008901 G3 box; other site 634503008902 Switch II region; other site 634503008903 G4 box; other site 634503008904 G5 box; other site 634503008905 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 634503008906 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 634503008907 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 634503008908 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 634503008909 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 634503008910 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 634503008911 NAD(P) binding site [chemical binding]; other site 634503008912 catalytic residues [active] 634503008913 voltage-gated potassium channel; Provisional; Region: PRK10537 634503008914 Ion channel; Region: Ion_trans_2; pfam07885 634503008915 TrkA-N domain; Region: TrkA_N; pfam02254 634503008916 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 634503008917 homotrimer interaction site [polypeptide binding]; other site 634503008918 putative active site [active] 634503008919 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 634503008920 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 634503008921 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 634503008922 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 634503008923 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 634503008924 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 634503008925 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 634503008926 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 634503008927 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634503008928 HlyD family secretion protein; Region: HlyD_3; pfam13437 634503008929 efflux system membrane protein; Provisional; Region: PRK11594 634503008930 transcriptional regulator; Provisional; Region: PRK10632 634503008931 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503008932 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 634503008933 putative effector binding pocket; other site 634503008934 dimerization interface [polypeptide binding]; other site 634503008935 protease TldD; Provisional; Region: tldD; PRK10735 634503008936 nitrilase; Region: PLN02798 634503008937 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 634503008938 putative active site [active] 634503008939 catalytic triad [active] 634503008940 dimer interface [polypeptide binding]; other site 634503008941 hypothetical protein; Provisional; Region: PRK10899 634503008942 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 634503008943 ribonuclease G; Provisional; Region: PRK11712 634503008944 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 634503008945 homodimer interface [polypeptide binding]; other site 634503008946 oligonucleotide binding site [chemical binding]; other site 634503008947 Maf-like protein; Region: Maf; pfam02545 634503008948 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 634503008949 active site 634503008950 dimer interface [polypeptide binding]; other site 634503008951 rod shape-determining protein MreD; Provisional; Region: PRK11060 634503008952 rod shape-determining protein MreC; Region: mreC; TIGR00219 634503008953 rod shape-determining protein MreC; Region: MreC; pfam04085 634503008954 rod shape-determining protein MreB; Provisional; Region: PRK13927 634503008955 MreB and similar proteins; Region: MreB_like; cd10225 634503008956 nucleotide binding site [chemical binding]; other site 634503008957 Mg binding site [ion binding]; other site 634503008958 putative protofilament interaction site [polypeptide binding]; other site 634503008959 RodZ interaction site [polypeptide binding]; other site 634503008960 regulatory protein CsrD; Provisional; Region: PRK11059 634503008961 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 634503008962 metal binding site [ion binding]; metal-binding site 634503008963 active site 634503008964 I-site; other site 634503008965 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 634503008966 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 634503008967 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 634503008968 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 634503008969 NADP binding site [chemical binding]; other site 634503008970 dimer interface [polypeptide binding]; other site 634503008971 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 634503008972 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 634503008973 Dehydroquinase class II; Region: DHquinase_II; pfam01220 634503008974 active site 634503008975 trimer interface [polypeptide binding]; other site 634503008976 dimer interface [polypeptide binding]; other site 634503008977 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 634503008978 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 634503008979 carboxyltransferase (CT) interaction site; other site 634503008980 biotinylation site [posttranslational modification]; other site 634503008981 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 634503008982 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 634503008983 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 634503008984 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 634503008985 hypothetical protein; Provisional; Region: PRK10633 634503008986 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 634503008987 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 634503008988 Na binding site [ion binding]; other site 634503008989 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 634503008990 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 634503008991 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 634503008992 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 634503008993 FMN binding site [chemical binding]; other site 634503008994 active site 634503008995 catalytic residues [active] 634503008996 substrate binding site [chemical binding]; other site 634503008997 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 634503008998 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 634503008999 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1888 634503009000 hypothetical protein; Provisional; Region: PRK10556 634503009001 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 634503009002 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 634503009003 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634503009004 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503009005 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 634503009006 putative dimerization interface [polypeptide binding]; other site 634503009007 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 634503009008 Transposase; Region: DEDD_Tnp_IS110; pfam01548 634503009009 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 634503009010 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 634503009011 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 634503009012 guanine deaminase; Provisional; Region: PRK09228 634503009013 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 634503009014 active site 634503009015 xanthine permease; Region: pbuX; TIGR03173 634503009016 putative hypoxanthine oxidase; Provisional; Region: PRK09800 634503009017 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 634503009018 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 634503009019 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 634503009020 putative oxidoreductase; Provisional; Region: PRK09799 634503009021 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 634503009022 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 634503009023 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 634503009024 active site 634503009025 putative substrate binding pocket [chemical binding]; other site 634503009026 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 634503009027 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 634503009028 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634503009029 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634503009030 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 634503009031 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 634503009032 Ligand binding site; other site 634503009033 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 634503009034 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 634503009035 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 634503009036 XdhC Rossmann domain; Region: XdhC_C; pfam13478 634503009037 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 634503009038 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 634503009039 carbamate kinase; Reviewed; Region: PRK12686 634503009040 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 634503009041 putative substrate binding site [chemical binding]; other site 634503009042 homodimer interface [polypeptide binding]; other site 634503009043 nucleotide binding site [chemical binding]; other site 634503009044 nucleotide binding site [chemical binding]; other site 634503009045 phenylhydantoinase; Validated; Region: PRK08323 634503009046 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 634503009047 tetramer interface [polypeptide binding]; other site 634503009048 active site 634503009049 peptidase; Reviewed; Region: PRK13004 634503009050 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 634503009051 putative metal binding site [ion binding]; other site 634503009052 putative dimer interface [polypeptide binding]; other site 634503009053 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 634503009054 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 634503009055 catalytic residue [active] 634503009056 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 634503009057 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 634503009058 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 634503009059 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 634503009060 GAF domain; Region: GAF; cl17456 634503009061 PAS domain; Region: PAS; smart00091 634503009062 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 634503009063 Walker A motif; other site 634503009064 ATP binding site [chemical binding]; other site 634503009065 Walker B motif; other site 634503009066 arginine finger; other site 634503009067 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 634503009068 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 634503009069 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 634503009070 dimer interface [polypeptide binding]; other site 634503009071 ssDNA binding site [nucleotide binding]; other site 634503009072 tetramer (dimer of dimers) interface [polypeptide binding]; other site 634503009073 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 634503009074 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 634503009075 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 634503009076 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 634503009077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 634503009078 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 634503009079 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 634503009080 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 634503009081 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503009082 homodimer interface [polypeptide binding]; other site 634503009083 catalytic residue [active] 634503009084 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 634503009085 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 634503009086 active site 634503009087 catalytic tetrad [active] 634503009088 hypothetical protein; Provisional; Region: PRK01254 634503009089 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 634503009090 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 634503009091 homoserine O-succinyltransferase; Provisional; Region: PRK05368 634503009092 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 634503009093 proposed active site lysine [active] 634503009094 conserved cys residue [active] 634503009095 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 634503009096 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 634503009097 trimer interface [polypeptide binding]; other site 634503009098 putative metal binding site [ion binding]; other site 634503009099 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 634503009100 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 634503009101 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 634503009102 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 634503009103 shikimate binding site; other site 634503009104 NAD(P) binding site [chemical binding]; other site 634503009105 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 634503009106 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 634503009107 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 634503009108 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 634503009109 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 634503009110 hypothetical protein; Validated; Region: PRK03430 634503009111 hypothetical protein; Provisional; Region: PRK10736 634503009112 DNA protecting protein DprA; Region: dprA; TIGR00732 634503009113 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 634503009114 active site 634503009115 catalytic residues [active] 634503009116 metal binding site [ion binding]; metal-binding site 634503009117 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 634503009118 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 634503009119 putative active site [active] 634503009120 substrate binding site [chemical binding]; other site 634503009121 putative cosubstrate binding site; other site 634503009122 catalytic site [active] 634503009123 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 634503009124 substrate binding site [chemical binding]; other site 634503009125 16S rRNA methyltransferase B; Provisional; Region: PRK10901 634503009126 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 634503009127 putative RNA binding site [nucleotide binding]; other site 634503009128 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 634503009129 S-adenosylmethionine binding site [chemical binding]; other site 634503009130 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 634503009131 TrkA-N domain; Region: TrkA_N; pfam02254 634503009132 TrkA-C domain; Region: TrkA_C; pfam02080 634503009133 TrkA-N domain; Region: TrkA_N; pfam02254 634503009134 TrkA-C domain; Region: TrkA_C; pfam02080 634503009135 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 634503009136 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 634503009137 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 634503009138 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 634503009139 Zn(II)-responsive transcriptional regulator; Region: ZntR; TIGR02043 634503009140 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 634503009141 DNA binding residues [nucleotide binding] 634503009142 dimer interface [polypeptide binding]; other site 634503009143 metal binding site [ion binding]; metal-binding site 634503009144 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 634503009145 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 634503009146 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 634503009147 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 634503009148 alphaNTD homodimer interface [polypeptide binding]; other site 634503009149 alphaNTD - beta interaction site [polypeptide binding]; other site 634503009150 alphaNTD - beta' interaction site [polypeptide binding]; other site 634503009151 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 634503009152 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 634503009153 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 634503009154 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 634503009155 RNA binding surface [nucleotide binding]; other site 634503009156 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 634503009157 30S ribosomal protein S13; Region: bact_S13; TIGR03631 634503009158 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 634503009159 SecY translocase; Region: SecY; pfam00344 634503009160 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 634503009161 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 634503009162 23S rRNA binding site [nucleotide binding]; other site 634503009163 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 634503009164 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 634503009165 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 634503009166 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 634503009167 23S rRNA interface [nucleotide binding]; other site 634503009168 5S rRNA interface [nucleotide binding]; other site 634503009169 L27 interface [polypeptide binding]; other site 634503009170 L5 interface [polypeptide binding]; other site 634503009171 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 634503009172 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 634503009173 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 634503009174 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 634503009175 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 634503009176 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 634503009177 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 634503009178 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 634503009179 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 634503009180 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 634503009181 RNA binding site [nucleotide binding]; other site 634503009182 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 634503009183 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 634503009184 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 634503009185 23S rRNA interface [nucleotide binding]; other site 634503009186 putative translocon interaction site; other site 634503009187 signal recognition particle (SRP54) interaction site; other site 634503009188 L23 interface [polypeptide binding]; other site 634503009189 trigger factor interaction site; other site 634503009190 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 634503009191 23S rRNA interface [nucleotide binding]; other site 634503009192 5S rRNA interface [nucleotide binding]; other site 634503009193 putative antibiotic binding site [chemical binding]; other site 634503009194 L25 interface [polypeptide binding]; other site 634503009195 L27 interface [polypeptide binding]; other site 634503009196 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 634503009197 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 634503009198 G-X-X-G motif; other site 634503009199 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 634503009200 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 634503009201 protein-rRNA interface [nucleotide binding]; other site 634503009202 putative translocon binding site; other site 634503009203 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 634503009204 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 634503009205 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 634503009206 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 634503009207 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 634503009208 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 634503009209 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 634503009210 elongation factor Tu; Reviewed; Region: PRK00049 634503009211 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 634503009212 G1 box; other site 634503009213 GEF interaction site [polypeptide binding]; other site 634503009214 GTP/Mg2+ binding site [chemical binding]; other site 634503009215 Switch I region; other site 634503009216 G2 box; other site 634503009217 G3 box; other site 634503009218 Switch II region; other site 634503009219 G4 box; other site 634503009220 G5 box; other site 634503009221 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 634503009222 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 634503009223 Antibiotic Binding Site [chemical binding]; other site 634503009224 elongation factor G; Reviewed; Region: PRK00007 634503009225 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 634503009226 G1 box; other site 634503009227 putative GEF interaction site [polypeptide binding]; other site 634503009228 GTP/Mg2+ binding site [chemical binding]; other site 634503009229 Switch I region; other site 634503009230 G2 box; other site 634503009231 G3 box; other site 634503009232 Switch II region; other site 634503009233 G4 box; other site 634503009234 G5 box; other site 634503009235 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 634503009236 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 634503009237 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 634503009238 30S ribosomal protein S7; Validated; Region: PRK05302 634503009239 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 634503009240 S17 interaction site [polypeptide binding]; other site 634503009241 S8 interaction site; other site 634503009242 16S rRNA interaction site [nucleotide binding]; other site 634503009243 streptomycin interaction site [chemical binding]; other site 634503009244 23S rRNA interaction site [nucleotide binding]; other site 634503009245 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 634503009246 DsrH like protein; Region: DsrH; cl17347 634503009247 sulfur relay protein TusC; Validated; Region: PRK00211 634503009248 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 634503009249 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 634503009250 YheO-like PAS domain; Region: PAS_6; pfam08348 634503009251 HTH domain; Region: HTH_22; pfam13309 634503009252 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 634503009253 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 634503009254 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 634503009255 phi X174 lysis protein; Provisional; Region: PRK02793 634503009256 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 634503009257 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 634503009258 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 634503009259 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 634503009260 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 634503009261 TrkA-N domain; Region: TrkA_N; pfam02254 634503009262 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 634503009263 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 634503009264 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634503009265 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634503009266 ABC transporter; Region: ABC_tran_2; pfam12848 634503009267 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634503009268 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 634503009269 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 634503009270 inhibitor-cofactor binding pocket; inhibition site 634503009271 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503009272 catalytic residue [active] 634503009273 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 634503009274 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 634503009275 glutamine binding [chemical binding]; other site 634503009276 catalytic triad [active] 634503009277 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 634503009278 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 634503009279 substrate binding site [chemical binding]; other site 634503009280 putative transporter; Provisional; Region: PRK03699 634503009281 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 634503009282 putative substrate translocation pore; other site 634503009283 cytosine deaminase; Provisional; Region: PRK09230 634503009284 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 634503009285 active site 634503009286 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 634503009287 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 634503009288 Na binding site [ion binding]; other site 634503009289 putative substrate binding site [chemical binding]; other site 634503009290 siroheme synthase; Provisional; Region: cysG; PRK10637 634503009291 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 634503009292 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 634503009293 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 634503009294 active site 634503009295 SAM binding site [chemical binding]; other site 634503009296 homodimer interface [polypeptide binding]; other site 634503009297 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 634503009298 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 634503009299 active site 634503009300 HIGH motif; other site 634503009301 dimer interface [polypeptide binding]; other site 634503009302 KMSKS motif; other site 634503009303 phosphoglycolate phosphatase; Provisional; Region: PRK13222 634503009304 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 634503009305 motif II; other site 634503009306 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 634503009307 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 634503009308 substrate binding site [chemical binding]; other site 634503009309 hexamer interface [polypeptide binding]; other site 634503009310 metal binding site [ion binding]; metal-binding site 634503009311 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 634503009312 hypothetical protein; Reviewed; Region: PRK11901 634503009313 cell division protein DamX; Validated; Region: PRK10905 634503009314 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 634503009315 active site 634503009316 dimer interface [polypeptide binding]; other site 634503009317 metal binding site [ion binding]; metal-binding site 634503009318 shikimate kinase; Reviewed; Region: aroK; PRK00131 634503009319 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 634503009320 ADP binding site [chemical binding]; other site 634503009321 magnesium binding site [ion binding]; other site 634503009322 putative shikimate binding site; other site 634503009323 putative outer membrane porin HofQ; Provisional; Region: hofQ; PRK13568 634503009324 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 634503009325 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 634503009326 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 634503009327 Transglycosylase; Region: Transgly; pfam00912 634503009328 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 634503009329 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 634503009330 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 634503009331 ADP-ribose binding site [chemical binding]; other site 634503009332 dimer interface [polypeptide binding]; other site 634503009333 active site 634503009334 nudix motif; other site 634503009335 metal binding site [ion binding]; metal-binding site 634503009336 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 634503009337 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 634503009338 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 634503009339 motif II; other site 634503009340 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 634503009341 RNA binding surface [nucleotide binding]; other site 634503009342 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 634503009343 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 634503009344 dimerization interface [polypeptide binding]; other site 634503009345 domain crossover interface; other site 634503009346 redox-dependent activation switch; other site 634503009347 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 634503009348 4Fe-4S binding domain; Region: Fer4; cl02805 634503009349 thiosulfate reductase cytochrome B subunit; Provisional; Region: PRK15006 634503009350 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 634503009351 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 634503009352 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 634503009353 active site residue [active] 634503009354 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 634503009355 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 634503009356 active site 634503009357 substrate-binding site [chemical binding]; other site 634503009358 metal-binding site [ion binding] 634503009359 ATP binding site [chemical binding]; other site 634503009360 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 634503009361 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 634503009362 dimerization interface [polypeptide binding]; other site 634503009363 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 634503009364 dimer interface [polypeptide binding]; other site 634503009365 phosphorylation site [posttranslational modification] 634503009366 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 634503009367 ATP binding site [chemical binding]; other site 634503009368 Mg2+ binding site [ion binding]; other site 634503009369 G-X-G motif; other site 634503009370 osmolarity response regulator; Provisional; Region: ompR; PRK09468 634503009371 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 634503009372 active site 634503009373 phosphorylation site [posttranslational modification] 634503009374 intermolecular recognition site; other site 634503009375 dimerization interface [polypeptide binding]; other site 634503009376 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 634503009377 DNA binding site [nucleotide binding] 634503009378 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 634503009379 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 634503009380 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 634503009381 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 634503009382 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 634503009383 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 634503009384 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 634503009385 RNA binding site [nucleotide binding]; other site 634503009386 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 634503009387 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 634503009388 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 634503009389 G1 box; other site 634503009390 GTP/Mg2+ binding site [chemical binding]; other site 634503009391 Switch I region; other site 634503009392 G2 box; other site 634503009393 G3 box; other site 634503009394 Switch II region; other site 634503009395 G4 box; other site 634503009396 G5 box; other site 634503009397 Nucleoside recognition; Region: Gate; pfam07670 634503009398 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 634503009399 Nucleoside recognition; Region: Gate; pfam07670 634503009400 FeoC like transcriptional regulator; Region: FeoC; cl17677 634503009401 carboxylesterase BioH; Provisional; Region: PRK10349 634503009402 Putative serine esterase (DUF676); Region: DUF676; pfam05057 634503009403 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 634503009404 DNA utilization protein GntX; Provisional; Region: PRK11595 634503009405 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634503009406 active site 634503009407 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 634503009408 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 634503009409 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 634503009410 transcriptional repressor UlaR; Provisional; Region: PRK13509 634503009411 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 634503009412 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 634503009413 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 634503009414 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 634503009415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 634503009416 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 634503009417 active site 634503009418 P-loop; other site 634503009419 phosphorylation site [posttranslational modification] 634503009420 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 634503009421 active site 634503009422 phosphorylation site [posttranslational modification] 634503009423 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 634503009424 active site 634503009425 dimer interface [polypeptide binding]; other site 634503009426 magnesium binding site [ion binding]; other site 634503009427 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 634503009428 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 634503009429 AP (apurinic/apyrimidinic) site pocket; other site 634503009430 DNA interaction; other site 634503009431 Metal-binding active site; metal-binding site 634503009432 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 634503009433 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 634503009434 intersubunit interface [polypeptide binding]; other site 634503009435 active site 634503009436 Zn2+ binding site [ion binding]; other site 634503009437 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 634503009438 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 634503009439 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634503009440 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 634503009441 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 634503009442 ligand binding site [chemical binding]; other site 634503009443 flexible hinge region; other site 634503009444 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 634503009445 putative switch regulator; other site 634503009446 non-specific DNA interactions [nucleotide binding]; other site 634503009447 DNA binding site [nucleotide binding] 634503009448 sequence specific DNA binding site [nucleotide binding]; other site 634503009449 putative cAMP binding site [chemical binding]; other site 634503009450 hypothetical protein; Provisional; Region: PRK04966 634503009451 putative hydrolase; Provisional; Region: PRK10985 634503009452 N terminus of Rad21 / Rec8 like protein; Region: Rad21_Rec8_N; pfam04825 634503009453 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 634503009454 transcriptional regulator MalT; Provisional; Region: PRK04841 634503009455 AAA ATPase domain; Region: AAA_16; pfam13191 634503009456 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 634503009457 DNA binding residues [nucleotide binding] 634503009458 dimerization interface [polypeptide binding]; other site 634503009459 maltodextrin phosphorylase; Provisional; Region: PRK14985 634503009460 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 634503009461 homodimer interface [polypeptide binding]; other site 634503009462 active site pocket [active] 634503009463 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 634503009464 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 634503009465 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 634503009466 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 634503009467 ligand binding site; other site 634503009468 oligomer interface; other site 634503009469 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 634503009470 N-terminal domain interface [polypeptide binding]; other site 634503009471 sulfate 1 binding site; other site 634503009472 glycogen branching enzyme; Provisional; Region: PRK05402 634503009473 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 634503009474 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 634503009475 active site 634503009476 catalytic site [active] 634503009477 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 634503009478 glycogen debranching enzyme; Provisional; Region: PRK03705 634503009479 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 634503009480 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 634503009481 active site 634503009482 catalytic site [active] 634503009483 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 634503009484 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 634503009485 ligand binding site; other site 634503009486 oligomer interface; other site 634503009487 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 634503009488 dimer interface [polypeptide binding]; other site 634503009489 N-terminal domain interface [polypeptide binding]; other site 634503009490 sulfate 1 binding site; other site 634503009491 glycogen synthase; Provisional; Region: glgA; PRK00654 634503009492 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 634503009493 ADP-binding pocket [chemical binding]; other site 634503009494 homodimer interface [polypeptide binding]; other site 634503009495 glycogen phosphorylase; Provisional; Region: PRK14986 634503009496 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 634503009497 homodimer interface [polypeptide binding]; other site 634503009498 active site pocket [active] 634503009499 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 634503009500 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 634503009501 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 634503009502 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 634503009503 intramembrane serine protease GlpG; Provisional; Region: PRK10907 634503009504 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 634503009505 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 634503009506 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 634503009507 active site residue [active] 634503009508 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 634503009509 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 634503009510 putative active site [active] 634503009511 catalytic site [active] 634503009512 putative metal binding site [ion binding]; other site 634503009513 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 634503009514 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 634503009515 DDE superfamily endonuclease; Region: DDE_3; pfam13358 634503009516 Resolvase, N terminal domain; Region: Resolvase; pfam00239 634503009517 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 634503009518 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; cl17393 634503009519 DNA-binding interface [nucleotide binding]; DNA binding site 634503009520 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 634503009521 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 634503009522 substrate binding pocket [chemical binding]; other site 634503009523 membrane-bound complex binding site; other site 634503009524 hinge residues; other site 634503009525 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 634503009526 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 634503009527 dimer interface [polypeptide binding]; other site 634503009528 conserved gate region; other site 634503009529 putative PBP binding loops; other site 634503009530 ABC-ATPase subunit interface; other site 634503009531 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 634503009532 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634503009533 Walker A/P-loop; other site 634503009534 ATP binding site [chemical binding]; other site 634503009535 Q-loop/lid; other site 634503009536 ABC transporter signature motif; other site 634503009537 Walker B; other site 634503009538 D-loop; other site 634503009539 H-loop/switch region; other site 634503009540 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 634503009541 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 634503009542 dimer interface [polypeptide binding]; other site 634503009543 conserved gate region; other site 634503009544 putative PBP binding loops; other site 634503009545 ABC-ATPase subunit interface; other site 634503009546 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 634503009547 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 634503009548 substrate binding pocket [chemical binding]; other site 634503009549 membrane-bound complex binding site; other site 634503009550 hinge residues; other site 634503009551 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 634503009552 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 634503009553 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 634503009554 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 634503009555 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 634503009556 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 634503009557 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 634503009558 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 634503009559 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 634503009560 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634503009561 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 634503009562 DNA binding residues [nucleotide binding] 634503009563 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 634503009564 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 634503009565 cell division protein FtsE; Provisional; Region: PRK10908 634503009566 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634503009567 Walker A/P-loop; other site 634503009568 ATP binding site [chemical binding]; other site 634503009569 Q-loop/lid; other site 634503009570 ABC transporter signature motif; other site 634503009571 Walker B; other site 634503009572 D-loop; other site 634503009573 H-loop/switch region; other site 634503009574 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 634503009575 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 634503009576 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 634503009577 P loop; other site 634503009578 GTP binding site [chemical binding]; other site 634503009579 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 634503009580 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 634503009581 S-adenosylmethionine binding site [chemical binding]; other site 634503009582 hypothetical protein; Provisional; Region: PRK10910 634503009583 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 634503009584 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 634503009585 Predicted membrane protein [Function unknown]; Region: COG3714 634503009586 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 634503009587 MOSC domain; Region: MOSC; pfam03473 634503009588 3-alpha domain; Region: 3-alpha; pfam03475 634503009589 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 634503009590 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 634503009591 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 634503009592 molybdopterin cofactor binding site; other site 634503009593 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 634503009594 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 634503009595 molybdopterin cofactor binding site; other site 634503009596 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 634503009597 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 634503009598 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 634503009599 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 634503009600 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 634503009601 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 634503009602 putative hydrolase; Provisional; Region: PRK10976 634503009603 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 634503009604 active site 634503009605 motif I; other site 634503009606 motif II; other site 634503009607 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 634503009608 lysophospholipase L2; Provisional; Region: PRK10749 634503009609 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 634503009610 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 634503009611 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 634503009612 magnesium-transporting ATPase; Provisional; Region: PRK15122 634503009613 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 634503009614 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 634503009615 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 634503009616 Soluble P-type ATPase [General function prediction only]; Region: COG4087 634503009617 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 634503009618 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 634503009619 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 634503009620 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 634503009621 universal stress protein UspB; Provisional; Region: PRK04960 634503009622 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 634503009623 Ligand Binding Site [chemical binding]; other site 634503009624 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 634503009625 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 634503009626 putative substrate translocation pore; other site 634503009627 POT family; Region: PTR2; pfam00854 634503009628 glutamate dehydrogenase; Provisional; Region: PRK09414 634503009629 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 634503009630 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 634503009631 NAD(P) binding site [chemical binding]; other site 634503009632 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634503009633 HAMP domain; Region: HAMP; pfam00672 634503009634 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 634503009635 dimer interface [polypeptide binding]; other site 634503009636 phosphorylation site [posttranslational modification] 634503009637 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 634503009638 ATP binding site [chemical binding]; other site 634503009639 Mg2+ binding site [ion binding]; other site 634503009640 G-X-G motif; other site 634503009641 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 634503009642 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 634503009643 active site 634503009644 phosphorylation site [posttranslational modification] 634503009645 intermolecular recognition site; other site 634503009646 dimerization interface [polypeptide binding]; other site 634503009647 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 634503009648 DNA binding site [nucleotide binding] 634503009649 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 634503009650 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 634503009651 putative methyltransferase; Provisional; Region: PRK10742 634503009652 oligopeptidase A; Provisional; Region: PRK10911 634503009653 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 634503009654 active site 634503009655 Zn binding site [ion binding]; other site 634503009656 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 634503009657 nucleotide binding site/active site [active] 634503009658 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 634503009659 glutathione reductase; Validated; Region: PRK06116 634503009660 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634503009661 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634503009662 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 634503009663 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 634503009664 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 634503009665 dimer interface [polypeptide binding]; other site 634503009666 ligand binding site [chemical binding]; other site 634503009667 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 634503009668 dimerization interface [polypeptide binding]; other site 634503009669 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 634503009670 dimer interface [polypeptide binding]; other site 634503009671 putative CheW interface [polypeptide binding]; other site 634503009672 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 634503009673 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 634503009674 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 634503009675 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 634503009676 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634503009677 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503009678 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 634503009679 CDP-diacylglycerol pyrophosphatase; Provisional; Region: PRK05471 634503009680 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 634503009681 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 634503009682 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 634503009683 substrate binding site [chemical binding]; other site 634503009684 ATP binding site [chemical binding]; other site 634503009685 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 634503009686 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 634503009687 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 634503009688 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 634503009689 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 634503009690 biofilm formation regulator HmsP; Provisional; Region: PRK11829 634503009691 HAMP domain; Region: HAMP; pfam00672 634503009692 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 634503009693 metal binding site [ion binding]; metal-binding site 634503009694 active site 634503009695 I-site; other site 634503009696 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 634503009697 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 634503009698 endo-1,4-D-glucanase; Provisional; Region: PRK11097 634503009699 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 634503009700 Protein of unknown function (DUF3260); Region: DUF3260; cl11881 634503009701 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 634503009702 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 634503009703 Walker A/P-loop; other site 634503009704 ATP binding site [chemical binding]; other site 634503009705 Q-loop/lid; other site 634503009706 ABC transporter signature motif; other site 634503009707 Walker B; other site 634503009708 D-loop; other site 634503009709 H-loop/switch region; other site 634503009710 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 634503009711 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 634503009712 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 634503009713 Walker A/P-loop; other site 634503009714 ATP binding site [chemical binding]; other site 634503009715 Q-loop/lid; other site 634503009716 ABC transporter signature motif; other site 634503009717 Walker B; other site 634503009718 D-loop; other site 634503009719 H-loop/switch region; other site 634503009720 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 634503009721 dipeptide transporter; Provisional; Region: PRK10913 634503009722 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 634503009723 putative PBP binding loops; other site 634503009724 dimer interface [polypeptide binding]; other site 634503009725 ABC-ATPase subunit interface; other site 634503009726 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 634503009727 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 634503009728 dimer interface [polypeptide binding]; other site 634503009729 conserved gate region; other site 634503009730 putative PBP binding loops; other site 634503009731 ABC-ATPase subunit interface; other site 634503009732 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 634503009733 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 634503009734 peptide binding site [polypeptide binding]; other site 634503009735 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cl00022 634503009736 putative deacylase active site [active] 634503009737 regulatory protein UhpC; Provisional; Region: PRK11663 634503009738 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 634503009739 putative substrate translocation pore; other site 634503009740 sensory histidine kinase UhpB; Provisional; Region: PRK11644 634503009741 MASE1; Region: MASE1; cl17823 634503009742 MASE1; Region: MASE1; pfam05231 634503009743 Histidine kinase; Region: HisKA_3; pfam07730 634503009744 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 634503009745 ATP binding site [chemical binding]; other site 634503009746 Mg2+ binding site [ion binding]; other site 634503009747 G-X-G motif; other site 634503009748 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 634503009749 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 634503009750 active site 634503009751 phosphorylation site [posttranslational modification] 634503009752 intermolecular recognition site; other site 634503009753 dimerization interface [polypeptide binding]; other site 634503009754 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 634503009755 DNA binding residues [nucleotide binding] 634503009756 dimerization interface [polypeptide binding]; other site 634503009757 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 634503009758 ligand binding site [chemical binding]; other site 634503009759 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 634503009760 dimerization interface [polypeptide binding]; other site 634503009761 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 634503009762 dimer interface [polypeptide binding]; other site 634503009763 putative CheW interface [polypeptide binding]; other site 634503009764 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 634503009765 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 634503009766 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 634503009767 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 634503009768 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 634503009769 active site 634503009770 metal binding site [ion binding]; metal-binding site 634503009771 nudix motif; other site 634503009772 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 634503009773 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634503009774 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 634503009775 Ligand Binding Site [chemical binding]; other site 634503009776 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 634503009777 Integrase core domain; Region: rve; pfam00665 634503009778 Integrase core domain; Region: rve_3; pfam13683 634503009779 triosephosphate isomerase; Provisional; Region: PRK14567 634503009780 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 634503009781 substrate binding site [chemical binding]; other site 634503009782 dimer interface [polypeptide binding]; other site 634503009783 catalytic triad [active] 634503009784 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 634503009785 Predicted membrane protein [Function unknown]; Region: COG3152 634503009786 ferredoxin-NADP reductase; Provisional; Region: PRK10926 634503009787 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 634503009788 FAD binding pocket [chemical binding]; other site 634503009789 FAD binding motif [chemical binding]; other site 634503009790 phosphate binding motif [ion binding]; other site 634503009791 beta-alpha-beta structure motif; other site 634503009792 NAD binding pocket [chemical binding]; other site 634503009793 Predicted transcriptional regulator [Transcription]; Region: COG2345 634503009794 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 634503009795 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 634503009796 putative substrate translocation pore; other site 634503009797 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 634503009798 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 634503009799 putative active site [active] 634503009800 glycerol kinase; Provisional; Region: glpK; PRK00047 634503009801 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 634503009802 N- and C-terminal domain interface [polypeptide binding]; other site 634503009803 active site 634503009804 MgATP binding site [chemical binding]; other site 634503009805 catalytic site [active] 634503009806 metal binding site [ion binding]; metal-binding site 634503009807 glycerol binding site [chemical binding]; other site 634503009808 homotetramer interface [polypeptide binding]; other site 634503009809 homodimer interface [polypeptide binding]; other site 634503009810 FBP binding site [chemical binding]; other site 634503009811 protein IIAGlc interface [polypeptide binding]; other site 634503009812 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 634503009813 amphipathic channel; other site 634503009814 Asn-Pro-Ala signature motifs; other site 634503009815 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3074 634503009816 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 634503009817 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 634503009818 UbiA prenyltransferase family; Region: UbiA; pfam01040 634503009819 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 634503009820 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 634503009821 Walker A motif; other site 634503009822 ATP binding site [chemical binding]; other site 634503009823 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 634503009824 Walker B motif; other site 634503009825 arginine finger; other site 634503009826 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 634503009827 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 634503009828 active site 634503009829 HslU subunit interaction site [polypeptide binding]; other site 634503009830 essential cell division protein FtsN; Provisional; Region: PRK10927 634503009831 cell division protein FtsN; Provisional; Region: PRK12757 634503009832 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 634503009833 DNA binding site [nucleotide binding] 634503009834 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 634503009835 domain linker motif; other site 634503009836 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 634503009837 dimerization interface [polypeptide binding]; other site 634503009838 ligand binding site [chemical binding]; other site 634503009839 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 634503009840 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 634503009841 ATP binding site [chemical binding]; other site 634503009842 putative Mg++ binding site [ion binding]; other site 634503009843 helicase superfamily c-terminal domain; Region: HELICc; smart00490 634503009844 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 634503009845 transcriptional repressor protein MetJ; Provisional; Region: PRK05264 634503009846 dimerization interface [polypeptide binding]; other site 634503009847 DNA binding site [nucleotide binding] 634503009848 corepressor binding sites; other site 634503009849 cystathionine gamma-synthase; Provisional; Region: PRK08045 634503009850 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 634503009851 homodimer interface [polypeptide binding]; other site 634503009852 substrate-cofactor binding pocket; other site 634503009853 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634503009854 catalytic residue [active] 634503009855 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 634503009856 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 634503009857 putative catalytic residues [active] 634503009858 putative nucleotide binding site [chemical binding]; other site 634503009859 putative aspartate binding site [chemical binding]; other site 634503009860 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 634503009861 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 634503009862 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 634503009863 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 634503009864 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 634503009865 active site 634503009866 ADP/pyrophosphate binding site [chemical binding]; other site 634503009867 dimerization interface [polypeptide binding]; other site 634503009868 allosteric effector site; other site 634503009869 fructose-1,6-bisphosphate binding site; other site 634503009870 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 634503009871 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 634503009872 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 634503009873 dimer interface [polypeptide binding]; other site 634503009874 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 634503009875 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 634503009876 active site 634503009877 intermolecular recognition site; other site 634503009878 dimerization interface [polypeptide binding]; other site 634503009879 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 634503009880 DNA binding site [nucleotide binding] 634503009881 two-component sensor protein; Provisional; Region: cpxA; PRK09470 634503009882 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 634503009883 dimerization interface [polypeptide binding]; other site 634503009884 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 634503009885 dimer interface [polypeptide binding]; other site 634503009886 phosphorylation site [posttranslational modification] 634503009887 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 634503009888 ATP binding site [chemical binding]; other site 634503009889 Mg2+ binding site [ion binding]; other site 634503009890 G-X-G motif; other site 634503009891 putative rRNA methylase; Provisional; Region: PRK10358 634503009892 serine acetyltransferase; Provisional; Region: cysE; PRK11132 634503009893 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 634503009894 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 634503009895 trimer interface [polypeptide binding]; other site 634503009896 active site 634503009897 substrate binding site [chemical binding]; other site 634503009898 CoA binding site [chemical binding]; other site 634503009899 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 634503009900 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 634503009901 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 634503009902 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 634503009903 SecA binding site; other site 634503009904 Preprotein binding site; other site 634503009905 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 634503009906 GSH binding site [chemical binding]; other site 634503009907 catalytic residues [active] 634503009908 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 634503009909 active site residue [active] 634503009910 phosphoglyceromutase; Provisional; Region: PRK05434 634503009911 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 634503009912 AmiB activator; Provisional; Region: PRK11637 634503009913 Peptidase family M23; Region: Peptidase_M23; pfam01551 634503009914 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 634503009915 NodB motif; other site 634503009916 putative active site [active] 634503009917 putative catalytic site [active] 634503009918 Zn binding site [ion binding]; other site 634503009919 hypothetical protein; Provisional; Region: PRK11027 634503009920 transcriptional regulator HdfR; Provisional; Region: PRK03601 634503009921 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503009922 LysR substrate binding domain; Region: LysR_substrate; pfam03466 634503009923 glutamate racemase; Provisional; Region: PRK00865 634503009924 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 634503009925 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 634503009926 N-terminal plug; other site 634503009927 ligand-binding site [chemical binding]; other site 634503009928 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 634503009929 active site 634503009930 motif I; other site 634503009931 motif II; other site 634503009932 acid phosphatase/phosphotransferase; Provisional; Region: aphA; PRK11009 634503009933 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 634503009934 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 634503009935 eyelet of channel; other site 634503009936 trimer interface [polypeptide binding]; other site 634503009937 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 634503009938 Protein of unknown function (DUF1422); Region: DUF1422; cl11649 634503009939 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 634503009940 MULE transposase domain; Region: MULE; pfam10551 634503009941 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 634503009942 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634503009943 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 634503009944 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634503009945 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 634503009946 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 634503009947 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634503009948 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 634503009949 dimerization interface [polypeptide binding]; other site 634503009950 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 634503009951 catalytic triad [active] 634503009952 dimer interface [polypeptide binding]; other site 634503009953 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 634503009954 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 634503009955 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634503009956 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634503009957 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 634503009958 argininosuccinate lyase; Provisional; Region: PRK04833 634503009959 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 634503009960 active sites [active] 634503009961 tetramer interface [polypeptide binding]; other site 634503009962 argininosuccinate synthase; Provisional; Region: PRK13820 634503009963 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 634503009964 ANP binding site [chemical binding]; other site 634503009965 Substrate Binding Site II [chemical binding]; other site 634503009966 Substrate Binding Site I [chemical binding]; other site 634503009967 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 634503009968 nucleotide binding site [chemical binding]; other site 634503009969 substrate binding site [chemical binding]; other site 634503009970 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 634503009971 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 634503009972 acetylornithine deacetylase; Provisional; Region: PRK05111 634503009973 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 634503009974 metal binding site [ion binding]; metal-binding site 634503009975 putative dimer interface [polypeptide binding]; other site 634503009976 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 634503009977 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 634503009978 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 634503009979 FAD binding site [chemical binding]; other site 634503009980 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634503009981 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634503009982 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 634503009983 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 634503009984 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 634503009985 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 634503009986 putative substrate translocation pore; other site 634503009987 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 634503009988 putative active site [active] 634503009989 dimerization interface [polypeptide binding]; other site 634503009990 putative tRNAtyr binding site [nucleotide binding]; other site 634503009991 hypothetical protein; Reviewed; Region: PRK01637 634503009992 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 634503009993 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 634503009994 motif II; other site 634503009995 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 634503009996 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 634503009997 G1 box; other site 634503009998 putative GEF interaction site [polypeptide binding]; other site 634503009999 GTP/Mg2+ binding site [chemical binding]; other site 634503010000 Switch I region; other site 634503010001 G2 box; other site 634503010002 G3 box; other site 634503010003 Switch II region; other site 634503010004 G4 box; other site 634503010005 G5 box; other site 634503010006 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 634503010007 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 634503010008 glutamine synthetase; Provisional; Region: glnA; PRK09469 634503010009 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 634503010010 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 634503010011 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 634503010012 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 634503010013 dimer interface [polypeptide binding]; other site 634503010014 phosphorylation site [posttranslational modification] 634503010015 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 634503010016 ATP binding site [chemical binding]; other site 634503010017 Mg2+ binding site [ion binding]; other site 634503010018 G-X-G motif; other site 634503010019 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 634503010020 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 634503010021 active site 634503010022 phosphorylation site [posttranslational modification] 634503010023 intermolecular recognition site; other site 634503010024 dimerization interface [polypeptide binding]; other site 634503010025 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 634503010026 Walker A motif; other site 634503010027 ATP binding site [chemical binding]; other site 634503010028 Walker B motif; other site 634503010029 arginine finger; other site 634503010030 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 634503010031 putative transporter; Validated; Region: PRK03818 634503010032 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 634503010033 TrkA-C domain; Region: TrkA_C; pfam02080 634503010034 TrkA-C domain; Region: TrkA_C; pfam02080 634503010035 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 634503010036 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 634503010037 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 634503010038 FeS/SAM binding site; other site 634503010039 HemN C-terminal domain; Region: HemN_C; pfam06969 634503010040 Der GTPase activator; Provisional; Region: PRK05244 634503010041 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 634503010042 G1 box; other site 634503010043 GTP/Mg2+ binding site [chemical binding]; other site 634503010044 Switch I region; other site 634503010045 G2 box; other site 634503010046 G3 box; other site 634503010047 Switch II region; other site 634503010048 G4 box; other site 634503010049 G5 box; other site 634503010050 DNA polymerase I; Provisional; Region: PRK05755 634503010051 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 634503010052 active site 634503010053 metal binding site 1 [ion binding]; metal-binding site 634503010054 putative 5' ssDNA interaction site; other site 634503010055 metal binding site 3; metal-binding site 634503010056 metal binding site 2 [ion binding]; metal-binding site 634503010057 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 634503010058 putative DNA binding site [nucleotide binding]; other site 634503010059 putative metal binding site [ion binding]; other site 634503010060 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 634503010061 active site 634503010062 catalytic site [active] 634503010063 substrate binding site [chemical binding]; other site 634503010064 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 634503010065 active site 634503010066 DNA binding site [nucleotide binding] 634503010067 catalytic site [active] 634503010068 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 634503010069 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 634503010070 putative acyl-acceptor binding pocket; other site 634503010071 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 634503010072 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 634503010073 catalytic residues [active] 634503010074 hinge region; other site 634503010075 alpha helical domain; other site 634503010076 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 634503010077 serine/threonine protein kinase; Provisional; Region: PRK11768 634503010078 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 634503010079 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 634503010080 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 634503010081 GTP binding site; other site 634503010082 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 634503010083 Walker A motif; other site 634503010084 Transcriptional regulators [Transcription]; Region: FadR; COG2186 634503010085 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634503010086 DNA-binding site [nucleotide binding]; DNA binding site 634503010087 FCD domain; Region: FCD; pfam07729 634503010088 putative transporter; Provisional; Region: PRK10504 634503010089 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 634503010090 transcriptional repressor RbsR; Provisional; Region: PRK10423 634503010091 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 634503010092 DNA binding site [nucleotide binding] 634503010093 domain linker motif; other site 634503010094 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 634503010095 dimerization interface [polypeptide binding]; other site 634503010096 ligand binding site [chemical binding]; other site 634503010097 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 634503010098 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 634503010099 substrate binding site [chemical binding]; other site 634503010100 dimer interface [polypeptide binding]; other site 634503010101 ATP binding site [chemical binding]; other site 634503010102 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 634503010103 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 634503010104 ligand binding site [chemical binding]; other site 634503010105 dimerization interface [polypeptide binding]; other site 634503010106 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 634503010107 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 634503010108 TM-ABC transporter signature motif; other site 634503010109 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 634503010110 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 634503010111 Walker A/P-loop; other site 634503010112 ATP binding site [chemical binding]; other site 634503010113 Q-loop/lid; other site 634503010114 ABC transporter signature motif; other site 634503010115 Walker B; other site 634503010116 D-loop; other site 634503010117 H-loop/switch region; other site 634503010118 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 634503010119 D-ribose pyranase; Provisional; Region: PRK11797 634503010120 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 634503010121 potassium uptake protein; Region: kup; TIGR00794 634503010122 regulatory ATPase RavA; Provisional; Region: PRK13531 634503010123 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 634503010124 Walker A motif; other site 634503010125 ATP binding site [chemical binding]; other site 634503010126 Walker B motif; other site 634503010127 arginine finger; other site 634503010128 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 634503010129 hypothetical protein; Provisional; Region: yieM; PRK10997 634503010130 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 634503010131 metal ion-dependent adhesion site (MIDAS); other site 634503010132 asparagine synthetase AsnA; Provisional; Region: PRK05425 634503010133 motif 1; other site 634503010134 dimer interface [polypeptide binding]; other site 634503010135 active site 634503010136 motif 2; other site 634503010137 motif 3; other site 634503010138 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 634503010139 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 634503010140 putative DNA binding site [nucleotide binding]; other site 634503010141 putative Zn2+ binding site [ion binding]; other site 634503010142 AsnC family; Region: AsnC_trans_reg; pfam01037 634503010143 FMN-binding protein MioC; Provisional; Region: PRK09004 634503010144 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 634503010145 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 634503010146 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 634503010147 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 634503010148 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 634503010149 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 634503010150 S-adenosylmethionine binding site [chemical binding]; other site 634503010151 ATP synthase I chain; Region: ATP_synt_I; cl09170 634503010152 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 634503010153 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 634503010154 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 634503010155 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 634503010156 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 634503010157 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 634503010158 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 634503010159 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 634503010160 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 634503010161 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 634503010162 Walker A motif; other site 634503010163 ATP binding site [chemical binding]; other site 634503010164 Walker B motif; other site 634503010165 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 634503010166 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 634503010167 core domain interface [polypeptide binding]; other site 634503010168 delta subunit interface [polypeptide binding]; other site 634503010169 epsilon subunit interface [polypeptide binding]; other site 634503010170 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 634503010171 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 634503010172 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 634503010173 alpha subunit interaction interface [polypeptide binding]; other site 634503010174 Walker A motif; other site 634503010175 ATP binding site [chemical binding]; other site 634503010176 Walker B motif; other site 634503010177 inhibitor binding site; inhibition site 634503010178 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 634503010179 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 634503010180 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 634503010181 gamma subunit interface [polypeptide binding]; other site 634503010182 epsilon subunit interface [polypeptide binding]; other site 634503010183 LBP interface [polypeptide binding]; other site 634503010184 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 634503010185 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 634503010186 Substrate binding site; other site 634503010187 Mg++ binding site; other site 634503010188 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 634503010189 active site 634503010190 substrate binding site [chemical binding]; other site 634503010191 CoA binding site [chemical binding]; other site 634503010192 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 634503010193 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 634503010194 glutaminase active site [active] 634503010195 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 634503010196 dimer interface [polypeptide binding]; other site 634503010197 active site 634503010198 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 634503010199 dimer interface [polypeptide binding]; other site 634503010200 active site 634503010201 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 634503010202 active site 634503010203 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 634503010204 substrate binding pocket [chemical binding]; other site 634503010205 membrane-bound complex binding site; other site 634503010206 hinge residues; other site 634503010207 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 634503010208 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 634503010209 dimer interface [polypeptide binding]; other site 634503010210 conserved gate region; other site 634503010211 putative PBP binding loops; other site 634503010212 ABC-ATPase subunit interface; other site 634503010213 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 634503010214 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 634503010215 dimer interface [polypeptide binding]; other site 634503010216 conserved gate region; other site 634503010217 putative PBP binding loops; other site 634503010218 ABC-ATPase subunit interface; other site 634503010219 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 634503010220 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 634503010221 Walker A/P-loop; other site 634503010222 ATP binding site [chemical binding]; other site 634503010223 Q-loop/lid; other site 634503010224 ABC transporter signature motif; other site 634503010225 Walker B; other site 634503010226 D-loop; other site 634503010227 H-loop/switch region; other site 634503010228 transcriptional regulator PhoU; Provisional; Region: PRK11115 634503010229 PhoU domain; Region: PhoU; pfam01895 634503010230 PhoU domain; Region: PhoU; pfam01895 634503010231 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 634503010232 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 634503010233 motif II; other site 634503010234 cryptic adenine deaminase; Provisional; Region: PRK10027 634503010235 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 634503010236 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 634503010237 active site 634503010238 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 634503010239 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 634503010240 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 634503010241 Uncharacterized conserved protein [Function unknown]; Region: COG0398 634503010242 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 634503010243 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 634503010244 Smr domain; Region: Smr; pfam01713 634503010245 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 634503010246 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 634503010247 trmE is a tRNA modification GTPase; Region: trmE; cd04164 634503010248 G1 box; other site 634503010249 GTP/Mg2+ binding site [chemical binding]; other site 634503010250 Switch I region; other site 634503010251 G2 box; other site 634503010252 Switch II region; other site 634503010253 G3 box; other site 634503010254 G4 box; other site 634503010255 G5 box; other site 634503010256 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 634503010257 membrane protein insertase; Provisional; Region: PRK01318 634503010258 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 634503010259 ribonuclease P; Reviewed; Region: rnpA; PRK01732 634503010260 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399