-- dump date 20140619_065435 -- class Genbank::misc_feature -- table misc_feature_note -- id note 579405000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 579405000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 579405000003 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 579405000004 Walker A motif; other site 579405000005 ATP binding site [chemical binding]; other site 579405000006 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 579405000007 Walker B motif; other site 579405000008 arginine finger; other site 579405000009 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 579405000010 DnaA box-binding interface [nucleotide binding]; other site 579405000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 579405000012 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 579405000013 putative DNA binding surface [nucleotide binding]; other site 579405000014 dimer interface [polypeptide binding]; other site 579405000015 beta-clamp/clamp loader binding surface; other site 579405000016 beta-clamp/translesion DNA polymerase binding surface; other site 579405000017 recF protein; Region: recf; TIGR00611 579405000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405000019 Walker A/P-loop; other site 579405000020 ATP binding site [chemical binding]; other site 579405000021 Q-loop/lid; other site 579405000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405000023 ABC transporter signature motif; other site 579405000024 Walker B; other site 579405000025 D-loop; other site 579405000026 H-loop/switch region; other site 579405000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 579405000028 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 579405000029 Mg2+ binding site [ion binding]; other site 579405000030 G-X-G motif; other site 579405000031 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 579405000032 anchoring element; other site 579405000033 dimer interface [polypeptide binding]; other site 579405000034 ATP binding site [chemical binding]; other site 579405000035 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 579405000036 active site 579405000037 putative metal-binding site [ion binding]; other site 579405000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 579405000039 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 579405000040 Major Facilitator Superfamily; Region: MFS_1; pfam07690 579405000041 putative substrate translocation pore; other site 579405000042 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 579405000043 Major Facilitator Superfamily; Region: MFS_1; pfam07690 579405000044 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 579405000045 active site 579405000046 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 579405000047 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 579405000048 ligand binding site [chemical binding]; other site 579405000049 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 579405000050 S-adenosylmethionine binding site [chemical binding]; other site 579405000051 oligopeptidase A; Provisional; Region: PRK10911 579405000052 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 579405000053 active site 579405000054 Zn binding site [ion binding]; other site 579405000055 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 579405000056 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 579405000057 glutathione reductase; Validated; Region: PRK06116 579405000058 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 579405000059 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 579405000060 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 579405000061 AAA domain; Region: AAA_11; pfam13086 579405000062 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 579405000063 ATP binding site [chemical binding]; other site 579405000064 AAA domain; Region: AAA_11; pfam13086 579405000065 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 579405000066 AAA domain; Region: AAA_12; pfam13087 579405000067 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 579405000068 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 579405000069 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 579405000070 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 579405000071 Uncharacterized conserved protein [Function unknown]; Region: COG1284 579405000072 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 579405000073 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 579405000074 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 579405000075 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 579405000076 putative DNA binding site [nucleotide binding]; other site 579405000077 putative Zn2+ binding site [ion binding]; other site 579405000078 AsnC family; Region: AsnC_trans_reg; pfam01037 579405000079 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 579405000080 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 579405000081 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 579405000082 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 579405000083 DNA binding site [nucleotide binding] 579405000084 active site 579405000085 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405000086 Coenzyme A binding pocket [chemical binding]; other site 579405000087 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 579405000088 Helix-turn-helix domain; Region: HTH_17; pfam12728 579405000089 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 579405000090 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 579405000091 cofactor binding site; other site 579405000092 DNA binding site [nucleotide binding] 579405000093 substrate interaction site [chemical binding]; other site 579405000094 glucokinase; Provisional; Region: glk; PRK00292 579405000095 glucokinase, proteobacterial type; Region: glk; TIGR00749 579405000096 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 579405000097 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405000098 DNA-binding site [nucleotide binding]; DNA binding site 579405000099 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 579405000100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405000101 homodimer interface [polypeptide binding]; other site 579405000102 catalytic residue [active] 579405000103 CMD domain protein, Avi_7170 family; Region: CMD_Avi_7170; TIGR04029 579405000104 alkylhydroperoxidase domain protein, Avi_7169 family; Region: perox_Avi_7169; TIGR04030 579405000105 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 579405000106 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 579405000107 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 579405000108 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 579405000109 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405000110 Walker A/P-loop; other site 579405000111 ATP binding site [chemical binding]; other site 579405000112 Q-loop/lid; other site 579405000113 ABC transporter signature motif; other site 579405000114 Walker B; other site 579405000115 D-loop; other site 579405000116 H-loop/switch region; other site 579405000117 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405000118 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405000119 Walker A/P-loop; other site 579405000120 ATP binding site [chemical binding]; other site 579405000121 Q-loop/lid; other site 579405000122 ABC transporter signature motif; other site 579405000123 Walker B; other site 579405000124 D-loop; other site 579405000125 H-loop/switch region; other site 579405000126 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405000127 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 579405000128 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 579405000129 putative PBP binding loops; other site 579405000130 ABC-ATPase subunit interface; other site 579405000131 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 579405000132 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 579405000133 dimer interface [polypeptide binding]; other site 579405000134 conserved gate region; other site 579405000135 putative PBP binding loops; other site 579405000136 ABC-ATPase subunit interface; other site 579405000137 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 579405000138 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_15; cd08492 579405000139 Virulence protein [General function prediction only]; Region: COG3943 579405000140 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 579405000141 malonic semialdehyde reductase; Provisional; Region: PRK10538 579405000142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 579405000143 NAD(P) binding site [chemical binding]; other site 579405000144 active site 579405000145 hypothetical protein; Provisional; Region: PRK06062 579405000146 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 579405000147 inhibitor-cofactor binding pocket; inhibition site 579405000148 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405000149 catalytic residue [active] 579405000150 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 579405000151 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 579405000152 Walker A/P-loop; other site 579405000153 ATP binding site [chemical binding]; other site 579405000154 Q-loop/lid; other site 579405000155 ABC transporter signature motif; other site 579405000156 Walker B; other site 579405000157 D-loop; other site 579405000158 H-loop/switch region; other site 579405000159 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 579405000160 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 579405000161 dimer interface [polypeptide binding]; other site 579405000162 conserved gate region; other site 579405000163 putative PBP binding loops; other site 579405000164 ABC-ATPase subunit interface; other site 579405000165 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 579405000166 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 579405000167 dimer interface [polypeptide binding]; other site 579405000168 conserved gate region; other site 579405000169 putative PBP binding loops; other site 579405000170 ABC-ATPase subunit interface; other site 579405000171 NMT1/THI5 like; Region: NMT1; pfam09084 579405000172 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 579405000173 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 579405000174 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 579405000175 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 579405000176 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405000177 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 579405000178 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 579405000179 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 579405000180 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 579405000181 FAD binding pocket [chemical binding]; other site 579405000182 FAD binding motif [chemical binding]; other site 579405000183 phosphate binding motif [ion binding]; other site 579405000184 beta-alpha-beta structure motif; other site 579405000185 NAD binding pocket [chemical binding]; other site 579405000186 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 579405000187 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 579405000188 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 579405000189 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 579405000190 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 579405000191 homodimer interface [polypeptide binding]; other site 579405000192 active site 579405000193 FMN binding site [chemical binding]; other site 579405000194 substrate binding site [chemical binding]; other site 579405000195 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 579405000196 phenylhydantoinase; Validated; Region: PRK08323 579405000197 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 579405000198 tetramer interface [polypeptide binding]; other site 579405000199 active site 579405000200 allantoate amidohydrolase; Reviewed; Region: PRK12893 579405000201 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 579405000202 active site 579405000203 metal binding site [ion binding]; metal-binding site 579405000204 dimer interface [polypeptide binding]; other site 579405000205 NIPSNAP; Region: NIPSNAP; pfam07978 579405000206 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 579405000207 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 579405000208 putative NAD(P) binding site [chemical binding]; other site 579405000209 catalytic Zn binding site [ion binding]; other site 579405000210 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 579405000211 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 579405000212 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405000213 homodimer interface [polypeptide binding]; other site 579405000214 catalytic residue [active] 579405000215 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 579405000216 active site 579405000217 catalytic residues [active] 579405000218 RloB-like protein; Region: RloB; pfam13707 579405000219 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405000220 AAA domain; Region: AAA_21; pfam13304 579405000221 Walker A/P-loop; other site 579405000222 ATP binding site [chemical binding]; other site 579405000223 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 579405000224 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 579405000225 dimerization interface [polypeptide binding]; other site 579405000226 ligand binding site [chemical binding]; other site 579405000227 NADP binding site [chemical binding]; other site 579405000228 catalytic site [active] 579405000229 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 579405000230 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 579405000231 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 579405000232 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 579405000233 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 579405000234 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 579405000235 dimer interface [polypeptide binding]; other site 579405000236 motif 1; other site 579405000237 active site 579405000238 motif 2; other site 579405000239 motif 3; other site 579405000240 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 579405000241 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 579405000242 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 579405000243 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 579405000244 Walker A/P-loop; other site 579405000245 ATP binding site [chemical binding]; other site 579405000246 Q-loop/lid; other site 579405000247 ABC transporter signature motif; other site 579405000248 Walker B; other site 579405000249 D-loop; other site 579405000250 H-loop/switch region; other site 579405000251 TOBE domain; Region: TOBE_2; pfam08402 579405000252 MarR family; Region: MarR_2; pfam12802 579405000253 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 579405000254 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 579405000255 nucleotide binding site [chemical binding]; other site 579405000256 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 579405000257 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 579405000258 nucleotide binding site [chemical binding]; other site 579405000259 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 579405000260 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 579405000261 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 579405000262 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 579405000263 dimer interface [polypeptide binding]; other site 579405000264 conserved gate region; other site 579405000265 putative PBP binding loops; other site 579405000266 ABC-ATPase subunit interface; other site 579405000267 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 579405000268 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 579405000269 putative PBP binding loops; other site 579405000270 dimer interface [polypeptide binding]; other site 579405000271 ABC-ATPase subunit interface; other site 579405000272 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 579405000273 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 579405000274 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 579405000275 dimerization interface [polypeptide binding]; other site 579405000276 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405000277 dimer interface [polypeptide binding]; other site 579405000278 putative CheW interface [polypeptide binding]; other site 579405000279 superoxide dismutase; Provisional; Region: PRK10925 579405000280 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 579405000281 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 579405000282 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 579405000283 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 579405000284 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 579405000285 NAD(P) binding site [chemical binding]; other site 579405000286 catalytic residues [active] 579405000287 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 579405000288 conserved cys residue [active] 579405000289 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405000290 Isochorismatase family; Region: Isochorismatase; pfam00857 579405000291 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; cl00220 579405000292 catalytic triad [active] 579405000293 conserved cis-peptide bond; other site 579405000294 xylulokinase; Provisional; Region: PRK15027 579405000295 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 579405000296 N- and C-terminal domain interface [polypeptide binding]; other site 579405000297 active site 579405000298 MgATP binding site [chemical binding]; other site 579405000299 catalytic site [active] 579405000300 metal binding site [ion binding]; metal-binding site 579405000301 xylulose binding site [chemical binding]; other site 579405000302 homodimer interface [polypeptide binding]; other site 579405000303 xylose isomerase; Provisional; Region: PRK05474 579405000304 xylose isomerase; Region: xylose_isom_A; TIGR02630 579405000305 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 579405000306 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 579405000307 putative ligand binding site [chemical binding]; other site 579405000308 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 579405000309 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405000310 Walker A/P-loop; other site 579405000311 ATP binding site [chemical binding]; other site 579405000312 Q-loop/lid; other site 579405000313 ABC transporter signature motif; other site 579405000314 Walker B; other site 579405000315 D-loop; other site 579405000316 H-loop/switch region; other site 579405000317 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 579405000318 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 579405000319 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 579405000320 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 579405000321 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 579405000322 TM-ABC transporter signature motif; other site 579405000323 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 579405000324 putative dimerization interface [polypeptide binding]; other site 579405000325 Transcriptional regulators [Transcription]; Region: PurR; COG1609 579405000326 putative ligand binding site [chemical binding]; other site 579405000327 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 579405000328 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405000329 DJ-1 family protein; Region: not_thiJ; TIGR01383 579405000330 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 579405000331 conserved cys residue [active] 579405000332 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 579405000333 putative metal binding site [ion binding]; other site 579405000334 putative homodimer interface [polypeptide binding]; other site 579405000335 putative homotetramer interface [polypeptide binding]; other site 579405000336 putative homodimer-homodimer interface [polypeptide binding]; other site 579405000337 putative allosteric switch controlling residues; other site 579405000338 High-affinity nickel-transport protein; Region: NicO; cl00964 579405000339 High-affinity nickel-transport protein; Region: NicO; cl00964 579405000340 argininosuccinate synthase; Validated; Region: PRK05370 579405000341 MarR family; Region: MarR_2; cl17246 579405000342 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 579405000343 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 579405000344 EamA-like transporter family; Region: EamA; cl17759 579405000345 3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III C terminal; Region: ACP_syn_III_C; pfam08541 579405000346 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 579405000347 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 579405000348 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 579405000349 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405000350 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 579405000351 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 579405000352 Walker A/P-loop; other site 579405000353 ATP binding site [chemical binding]; other site 579405000354 Q-loop/lid; other site 579405000355 ABC transporter signature motif; other site 579405000356 Walker B; other site 579405000357 D-loop; other site 579405000358 H-loop/switch region; other site 579405000359 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 579405000360 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 579405000361 FtsX-like permease family; Region: FtsX; pfam02687 579405000362 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 579405000363 FtsX-like permease family; Region: FtsX; pfam02687 579405000364 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 579405000365 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 579405000366 active site 579405000367 phosphorylation site [posttranslational modification] 579405000368 intermolecular recognition site; other site 579405000369 dimerization interface [polypeptide binding]; other site 579405000370 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 579405000371 Walker A motif; other site 579405000372 ATP binding site [chemical binding]; other site 579405000373 Walker B motif; other site 579405000374 arginine finger; other site 579405000375 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 579405000376 PAS domain; Region: PAS; smart00091 579405000377 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 579405000378 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 579405000379 ATP binding site [chemical binding]; other site 579405000380 Mg2+ binding site [ion binding]; other site 579405000381 G-X-G motif; other site 579405000382 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 579405000383 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 579405000384 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 579405000385 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 579405000386 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 579405000387 active site 579405000388 3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III C terminal; Region: ACP_syn_III_C; pfam08541 579405000389 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 579405000390 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 579405000391 active site 579405000392 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 579405000393 active site 579405000394 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 579405000395 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 579405000396 acyl-activating enzyme (AAE) consensus motif; other site 579405000397 AMP binding site [chemical binding]; other site 579405000398 active site 579405000399 CoA binding site [chemical binding]; other site 579405000400 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 579405000401 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 579405000402 acyl-activating enzyme (AAE) consensus motif; other site 579405000403 AMP binding site [chemical binding]; other site 579405000404 Phosphopantetheine attachment site; Region: PP-binding; cl09936 579405000405 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 579405000406 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 579405000407 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 579405000408 acyl-activating enzyme (AAE) consensus motif; other site 579405000409 acyl-activating enzyme (AAE) consensus motif; other site 579405000410 putative AMP binding site [chemical binding]; other site 579405000411 putative active site [active] 579405000412 putative CoA binding site [chemical binding]; other site 579405000413 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 579405000414 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 579405000415 dimer interface [polypeptide binding]; other site 579405000416 active site 579405000417 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 579405000418 catalytic residues [active] 579405000419 substrate binding site [chemical binding]; other site 579405000420 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 579405000421 active site 579405000422 dimer interface [polypeptide binding]; other site 579405000423 magnesium binding site [ion binding]; other site 579405000424 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 579405000425 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 579405000426 intersubunit interface [polypeptide binding]; other site 579405000427 active site 579405000428 Zn2+ binding site [ion binding]; other site 579405000429 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 579405000430 active site 579405000431 phosphorylation site [posttranslational modification] 579405000432 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 579405000433 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 579405000434 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 579405000435 active site 579405000436 P-loop; other site 579405000437 phosphorylation site [posttranslational modification] 579405000438 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 579405000439 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 579405000440 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 579405000441 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 579405000442 active site 579405000443 motif I; other site 579405000444 motif II; other site 579405000445 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 579405000446 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 579405000447 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 579405000448 AP (apurinic/apyrimidinic) site pocket; other site 579405000449 DNA interaction; other site 579405000450 Metal-binding active site; metal-binding site 579405000451 transcriptional repressor UlaR; Provisional; Region: PRK13509 579405000452 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 579405000453 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 579405000454 Integrase core domain; Region: rve; pfam00665 579405000455 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 579405000456 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 579405000457 Ligand binding site; other site 579405000458 Putative Catalytic site; other site 579405000459 DXD motif; other site 579405000460 Predicted membrane protein [Function unknown]; Region: COG2246 579405000461 GtrA-like protein; Region: GtrA; pfam04138 579405000462 Autoinducer binding domain; Region: Autoind_bind; pfam03472 579405000463 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 579405000464 DNA binding residues [nucleotide binding] 579405000465 dimerization interface [polypeptide binding]; other site 579405000466 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 579405000467 active site 579405000468 substrate binding site [chemical binding]; other site 579405000469 ATP binding site [chemical binding]; other site 579405000470 hypothetical protein; Provisional; Region: PRK11820 579405000471 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 579405000472 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 579405000473 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 579405000474 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 579405000475 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405000476 LysR substrate binding domain; Region: LysR_substrate; pfam03466 579405000477 dimerization interface [polypeptide binding]; other site 579405000478 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 579405000479 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 579405000480 active site 579405000481 dimer interface [polypeptide binding]; other site 579405000482 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 579405000483 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 579405000484 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 579405000485 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 579405000486 dimer interface [polypeptide binding]; other site 579405000487 conserved gate region; other site 579405000488 putative PBP binding loops; other site 579405000489 ABC-ATPase subunit interface; other site 579405000490 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 579405000491 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 579405000492 dimer interface [polypeptide binding]; other site 579405000493 conserved gate region; other site 579405000494 putative PBP binding loops; other site 579405000495 ABC-ATPase subunit interface; other site 579405000496 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 579405000497 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405000498 Walker A/P-loop; other site 579405000499 ATP binding site [chemical binding]; other site 579405000500 Q-loop/lid; other site 579405000501 ABC transporter signature motif; other site 579405000502 Walker B; other site 579405000503 D-loop; other site 579405000504 H-loop/switch region; other site 579405000505 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405000506 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 579405000507 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405000508 Walker A/P-loop; other site 579405000509 ATP binding site [chemical binding]; other site 579405000510 Q-loop/lid; other site 579405000511 ABC transporter signature motif; other site 579405000512 Walker B; other site 579405000513 D-loop; other site 579405000514 H-loop/switch region; other site 579405000515 Beta-lactamase; Region: Beta-lactamase; pfam00144 579405000516 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 579405000517 catalytic nucleophile [active] 579405000518 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 579405000519 SxDxEG motif; other site 579405000520 active site 579405000521 metal binding site [ion binding]; metal-binding site 579405000522 homopentamer interface [polypeptide binding]; other site 579405000523 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 579405000524 homodimer interface [polypeptide binding]; other site 579405000525 homotetramer interface [polypeptide binding]; other site 579405000526 active site pocket [active] 579405000527 cleavage site 579405000528 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 579405000529 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 579405000530 dimer interface [polypeptide binding]; other site 579405000531 conserved gate region; other site 579405000532 putative PBP binding loops; other site 579405000533 ABC-ATPase subunit interface; other site 579405000534 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 579405000535 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 579405000536 dimer interface [polypeptide binding]; other site 579405000537 conserved gate region; other site 579405000538 putative PBP binding loops; other site 579405000539 ABC-ATPase subunit interface; other site 579405000540 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 579405000541 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 579405000542 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 579405000543 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405000544 Walker A/P-loop; other site 579405000545 ATP binding site [chemical binding]; other site 579405000546 Q-loop/lid; other site 579405000547 ABC transporter signature motif; other site 579405000548 Walker B; other site 579405000549 D-loop; other site 579405000550 H-loop/switch region; other site 579405000551 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 579405000552 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405000553 Walker A/P-loop; other site 579405000554 ATP binding site [chemical binding]; other site 579405000555 Q-loop/lid; other site 579405000556 ABC transporter signature motif; other site 579405000557 Walker B; other site 579405000558 D-loop; other site 579405000559 H-loop/switch region; other site 579405000560 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 579405000561 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 579405000562 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 579405000563 active site 579405000564 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 579405000565 Domain of unknown function (DUF202); Region: DUF202; pfam02656 579405000566 Predicted membrane protein [Function unknown]; Region: COG2149 579405000567 ribonuclease PH; Reviewed; Region: rph; PRK00173 579405000568 Ribonuclease PH; Region: RNase_PH_bact; cd11362 579405000569 hexamer interface [polypeptide binding]; other site 579405000570 active site 579405000571 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 579405000572 active site 579405000573 division inhibitor protein; Provisional; Region: slmA; PRK09480 579405000574 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 579405000575 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 579405000576 trimer interface [polypeptide binding]; other site 579405000577 active site 579405000578 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 579405000579 Flavoprotein; Region: Flavoprotein; pfam02441 579405000580 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 579405000581 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 579405000582 diiron binding motif [ion binding]; other site 579405000583 hypothetical protein; Reviewed; Region: PRK00024 579405000584 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 579405000585 MPN+ (JAMM) motif; other site 579405000586 Zinc-binding site [ion binding]; other site 579405000587 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 579405000588 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 579405000589 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 579405000590 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 579405000591 DNA binding site [nucleotide binding] 579405000592 catalytic residue [active] 579405000593 H2TH interface [polypeptide binding]; other site 579405000594 putative catalytic residues [active] 579405000595 turnover-facilitating residue; other site 579405000596 intercalation triad [nucleotide binding]; other site 579405000597 8OG recognition residue [nucleotide binding]; other site 579405000598 putative reading head residues; other site 579405000599 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 579405000600 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 579405000601 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 579405000602 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 579405000603 active site 579405000604 (T/H)XGH motif; other site 579405000605 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 579405000606 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 579405000607 putative metal binding site; other site 579405000608 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 579405000609 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 579405000610 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 579405000611 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 579405000612 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 579405000613 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 579405000614 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 579405000615 putative active site [active] 579405000616 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 579405000617 O-Antigen ligase; Region: Wzy_C; pfam04932 579405000618 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 579405000619 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 579405000620 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 579405000621 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 579405000622 putative active site [active] 579405000623 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 579405000624 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 579405000625 putative active site [active] 579405000626 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 579405000627 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 579405000628 putative active site [active] 579405000629 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 579405000630 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 579405000631 NADP binding site [chemical binding]; other site 579405000632 homopentamer interface [polypeptide binding]; other site 579405000633 substrate binding site [chemical binding]; other site 579405000634 active site 579405000635 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 579405000636 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 579405000637 substrate-cofactor binding pocket; other site 579405000638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405000639 catalytic residue [active] 579405000640 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 579405000641 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 579405000642 NAD(P) binding site [chemical binding]; other site 579405000643 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 579405000644 NodB motif; other site 579405000645 putative active site [active] 579405000646 putative catalytic site [active] 579405000647 Zn binding site [ion binding]; other site 579405000648 AmiB activator; Provisional; Region: PRK11637 579405000649 Peptidase family M23; Region: Peptidase_M23; pfam01551 579405000650 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 579405000651 active site residue [active] 579405000652 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 579405000653 SecA binding site; other site 579405000654 Preprotein binding site; other site 579405000655 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 579405000656 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 579405000657 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 579405000658 serine acetyltransferase; Provisional; Region: cysE; PRK11132 579405000659 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 579405000660 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 579405000661 trimer interface [polypeptide binding]; other site 579405000662 active site 579405000663 substrate binding site [chemical binding]; other site 579405000664 CoA binding site [chemical binding]; other site 579405000665 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 579405000666 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 579405000667 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 579405000668 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405000669 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 579405000670 putative dimerization interface [polypeptide binding]; other site 579405000671 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 579405000672 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 579405000673 THF binding site; other site 579405000674 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 579405000675 substrate binding site [chemical binding]; other site 579405000676 THF binding site; other site 579405000677 zinc-binding site [ion binding]; other site 579405000678 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 579405000679 uridine phosphorylase; Provisional; Region: PRK11178 579405000680 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 579405000681 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 579405000682 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 579405000683 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 579405000684 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 579405000685 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 579405000686 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 579405000687 metal binding site [ion binding]; metal-binding site 579405000688 substrate binding pocket [chemical binding]; other site 579405000689 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405000690 transcriptional regulator protein; Region: phnR; TIGR03337 579405000691 DNA-binding site [nucleotide binding]; DNA binding site 579405000692 UTRA domain; Region: UTRA; pfam07702 579405000693 acetylornithine deacetylase; Provisional; Region: PRK05111 579405000694 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 579405000695 metal binding site [ion binding]; metal-binding site 579405000696 putative dimer interface [polypeptide binding]; other site 579405000697 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 579405000698 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 579405000699 AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of...; Region: AAK_NAGK-NC; cd04249 579405000700 nucleotide binding site [chemical binding]; other site 579405000701 N-acetyl-L-glutamate binding site [chemical binding]; other site 579405000702 argininosuccinate lyase; Provisional; Region: PRK04833 579405000703 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 579405000704 active sites [active] 579405000705 tetramer interface [polypeptide binding]; other site 579405000706 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 579405000707 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 579405000708 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 579405000709 Part of AAA domain; Region: AAA_19; pfam13245 579405000710 Family description; Region: UvrD_C_2; pfam13538 579405000711 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 579405000712 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 579405000713 Interdomain contacts; other site 579405000714 Cytokine receptor motif; other site 579405000715 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 579405000716 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 579405000717 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 579405000718 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 579405000719 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 579405000720 ATP binding site [chemical binding]; other site 579405000721 Mg++ binding site [ion binding]; other site 579405000722 motif III; other site 579405000723 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 579405000724 nucleotide binding region [chemical binding]; other site 579405000725 ATP-binding site [chemical binding]; other site 579405000726 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 579405000727 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 579405000728 catalytic residues [active] 579405000729 transcription termination factor Rho; Provisional; Region: rho; PRK09376 579405000730 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 579405000731 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 579405000732 RNA binding site [nucleotide binding]; other site 579405000733 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 579405000734 multimer interface [polypeptide binding]; other site 579405000735 Walker A motif; other site 579405000736 ATP binding site [chemical binding]; other site 579405000737 Walker B motif; other site 579405000738 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 579405000739 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 579405000740 active site 579405000741 homodimer interface [polypeptide binding]; other site 579405000742 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 579405000743 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 579405000744 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 579405000745 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405000746 Coenzyme A binding pocket [chemical binding]; other site 579405000747 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 579405000748 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 579405000749 inhibitor-cofactor binding pocket; inhibition site 579405000750 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405000751 catalytic residue [active] 579405000752 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 579405000753 4-alpha-L-fucosyltransferase; Provisional; Region: PRK02797 579405000754 putative common antigen polymerase; Provisional; Region: PRK02975 579405000755 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 579405000756 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 579405000757 putative transport protein YifK; Provisional; Region: PRK10746 579405000758 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 579405000759 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 579405000760 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 579405000761 tetramer interface [polypeptide binding]; other site 579405000762 active site 579405000763 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405000764 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 579405000765 Coenzyme A binding pocket [chemical binding]; other site 579405000766 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 579405000767 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 579405000768 substrate binding pocket [chemical binding]; other site 579405000769 membrane-bound complex binding site; other site 579405000770 hinge residues; other site 579405000771 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 579405000772 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 579405000773 dimer interface [polypeptide binding]; other site 579405000774 conserved gate region; other site 579405000775 putative PBP binding loops; other site 579405000776 ABC-ATPase subunit interface; other site 579405000777 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 579405000778 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 579405000779 Walker A/P-loop; other site 579405000780 ATP binding site [chemical binding]; other site 579405000781 Q-loop/lid; other site 579405000782 ABC transporter signature motif; other site 579405000783 Walker B; other site 579405000784 D-loop; other site 579405000785 H-loop/switch region; other site 579405000786 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 579405000787 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 579405000788 metal binding site [ion binding]; metal-binding site 579405000789 dimer interface [polypeptide binding]; other site 579405000790 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 579405000791 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 579405000792 putative NAD(P) binding site [chemical binding]; other site 579405000793 catalytic Zn binding site [ion binding]; other site 579405000794 gluconate 5-dehydrogenase; Provisional; Region: PRK08085 579405000795 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 579405000796 NADP binding site [chemical binding]; other site 579405000797 homodimer interface [polypeptide binding]; other site 579405000798 active site 579405000799 fructuronate transporter; Provisional; Region: PRK10034; cl15264 579405000800 gluconate transporter; Region: gntP; TIGR00791 579405000801 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 579405000802 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 579405000803 DNA binding site [nucleotide binding] 579405000804 domain linker motif; other site 579405000805 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 579405000806 putative dimerization interface [polypeptide binding]; other site 579405000807 putative ligand binding site [chemical binding]; other site 579405000808 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 579405000809 HemY protein N-terminus; Region: HemY_N; pfam07219 579405000810 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 579405000811 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 579405000812 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 579405000813 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 579405000814 active site 579405000815 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 579405000816 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 579405000817 domain interfaces; other site 579405000818 active site 579405000819 adenylate cyclase; Provisional; Region: cyaA; PRK09450 579405000820 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 579405000821 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 579405000822 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 579405000823 putative iron binding site [ion binding]; other site 579405000824 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 579405000825 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 579405000826 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 579405000827 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 579405000828 hypothetical protein; Provisional; Region: PRK10963 579405000829 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 579405000830 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 579405000831 active site 579405000832 Int/Topo IB signature motif; other site 579405000833 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 579405000834 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 579405000835 motif II; other site 579405000836 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 579405000837 Part of AAA domain; Region: AAA_19; pfam13245 579405000838 Family description; Region: UvrD_C_2; pfam13538 579405000839 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 579405000840 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 579405000841 Cl binding site [ion binding]; other site 579405000842 oligomer interface [polypeptide binding]; other site 579405000843 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 579405000844 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 579405000845 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 579405000846 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 579405000847 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 579405000848 CoenzymeA binding site [chemical binding]; other site 579405000849 subunit interaction site [polypeptide binding]; other site 579405000850 PHB binding site; other site 579405000851 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 579405000852 dimerization interface [polypeptide binding]; other site 579405000853 substrate binding site [chemical binding]; other site 579405000854 active site 579405000855 calcium binding site [ion binding]; other site 579405000856 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 579405000857 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 579405000858 ATP binding site [chemical binding]; other site 579405000859 putative Mg++ binding site [ion binding]; other site 579405000860 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 579405000861 nucleotide binding region [chemical binding]; other site 579405000862 ATP-binding site [chemical binding]; other site 579405000863 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 579405000864 HRDC domain; Region: HRDC; pfam00570 579405000865 threonine efflux system; Provisional; Region: PRK10229 579405000866 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 579405000867 lysophospholipase L2; Provisional; Region: PRK10749 579405000868 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 579405000869 putative hydrolase; Provisional; Region: PRK10976 579405000870 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 579405000871 active site 579405000872 motif I; other site 579405000873 motif II; other site 579405000874 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 579405000875 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 579405000876 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 579405000877 putative substrate translocation pore; other site 579405000878 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 579405000879 hydroxyglutarate oxidase; Provisional; Region: PRK11728 579405000880 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 579405000881 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 579405000882 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 579405000883 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 579405000884 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 579405000885 Cysteine-rich domain; Region: CCG; pfam02754 579405000886 Cysteine-rich domain; Region: CCG; pfam02754 579405000887 Pirin-related protein [General function prediction only]; Region: COG1741 579405000888 Pirin; Region: Pirin; pfam02678 579405000889 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 579405000890 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 579405000891 OPT oligopeptide transporter protein; Region: OPT; cl14607 579405000892 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 579405000893 hypothetical protein; Provisional; Region: PRK10481 579405000894 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 579405000895 active site pocket [active] 579405000896 oxyanion hole [active] 579405000897 catalytic triad [active] 579405000898 active site nucleophile [active] 579405000899 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 579405000900 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405000901 Walker A/P-loop; other site 579405000902 ATP binding site [chemical binding]; other site 579405000903 Q-loop/lid; other site 579405000904 ABC transporter signature motif; other site 579405000905 Walker B; other site 579405000906 D-loop; other site 579405000907 H-loop/switch region; other site 579405000908 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405000909 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 579405000910 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405000911 Walker A/P-loop; other site 579405000912 ATP binding site [chemical binding]; other site 579405000913 Q-loop/lid; other site 579405000914 ABC transporter signature motif; other site 579405000915 Walker B; other site 579405000916 D-loop; other site 579405000917 H-loop/switch region; other site 579405000918 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 579405000919 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 579405000920 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 579405000921 metal binding site [ion binding]; metal-binding site 579405000922 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 579405000923 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 579405000924 dimer interface [polypeptide binding]; other site 579405000925 conserved gate region; other site 579405000926 putative PBP binding loops; other site 579405000927 ABC-ATPase subunit interface; other site 579405000928 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 579405000929 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 579405000930 putative PBP binding loops; other site 579405000931 dimer interface [polypeptide binding]; other site 579405000932 ABC-ATPase subunit interface; other site 579405000933 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 579405000934 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 579405000935 Transcriptional regulator [Transcription]; Region: IclR; COG1414 579405000936 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 579405000937 Bacterial transcriptional regulator; Region: IclR; pfam01614 579405000938 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 579405000939 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 579405000940 DNA binding site [nucleotide binding] 579405000941 domain linker motif; other site 579405000942 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 579405000943 putative ligand binding site [chemical binding]; other site 579405000944 putative dimerization interface [polypeptide binding]; other site 579405000945 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 579405000946 ATP-binding site [chemical binding]; other site 579405000947 Gluconate-6-phosphate binding site [chemical binding]; other site 579405000948 Shikimate kinase; Region: SKI; pfam01202 579405000949 high-affinity gluconate transporter; Provisional; Region: PRK14984 579405000950 gluconate transporter; Region: gntP; TIGR00791 579405000951 putative antibiotic transporter; Provisional; Region: PRK10739 579405000952 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 579405000953 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 579405000954 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 579405000955 nickel responsive regulator; Provisional; Region: PRK02967 579405000956 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 579405000957 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 579405000958 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 579405000959 S-adenosylmethionine binding site [chemical binding]; other site 579405000960 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 579405000961 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 579405000962 substrate binding site [chemical binding]; other site 579405000963 nickel ABC transporter, permease subunit NikB; Region: nickel_nikB; TIGR02789 579405000964 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 579405000965 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 579405000966 dimer interface [polypeptide binding]; other site 579405000967 ABC-ATPase subunit interface; other site 579405000968 putative PBP binding loops; other site 579405000969 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 579405000970 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 579405000971 dimer interface [polypeptide binding]; other site 579405000972 conserved gate region; other site 579405000973 ABC-ATPase subunit interface; other site 579405000974 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 579405000975 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 579405000976 GAF domain; Region: GAF; pfam01590 579405000977 Histidine kinase; Region: His_kinase; pfam06580 579405000978 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 579405000979 ATP binding site [chemical binding]; other site 579405000980 Mg2+ binding site [ion binding]; other site 579405000981 G-X-G motif; other site 579405000982 glycogen branching enzyme; Provisional; Region: PRK05402 579405000983 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 579405000984 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 579405000985 active site 579405000986 catalytic site [active] 579405000987 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 579405000988 glycogen debranching enzyme; Provisional; Region: PRK03705 579405000989 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 579405000990 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 579405000991 active site 579405000992 catalytic site [active] 579405000993 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 579405000994 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 579405000995 ligand binding site; other site 579405000996 oligomer interface; other site 579405000997 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 579405000998 N-terminal domain interface [polypeptide binding]; other site 579405000999 sulfate 1 binding site; other site 579405001000 glycogen synthase; Provisional; Region: glgA; PRK00654 579405001001 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 579405001002 ADP-binding pocket [chemical binding]; other site 579405001003 homodimer interface [polypeptide binding]; other site 579405001004 glycogen phosphorylase; Provisional; Region: PRK14986 579405001005 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 579405001006 homodimer interface [polypeptide binding]; other site 579405001007 active site pocket [active] 579405001008 hypothetical protein; Provisional; Region: PRK09946 579405001009 thiosulfate reductase cytochrome B subunit; Provisional; Region: PRK15006 579405001010 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 579405001011 hypothetical protein; Provisional; Region: PRK09947 579405001012 putative oxidoreductase; Provisional; Region: PRK09849 579405001013 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 579405001014 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 579405001015 hypothetical protein; Provisional; Region: PRK09898 579405001016 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 579405001017 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 579405001018 active site residue [active] 579405001019 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 579405001020 PLD-like domain; Region: PLDc_2; pfam13091 579405001021 putative active site [active] 579405001022 catalytic site [active] 579405001023 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 579405001024 EAL domain; Region: EAL; pfam00563 579405001025 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 579405001026 DNA binding site [nucleotide binding] 579405001027 Transcriptional regulators [Transcription]; Region: PurR; COG1609 579405001028 domain linker motif; other site 579405001029 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 579405001030 putative ligand binding site [chemical binding]; other site 579405001031 putative dimerization interface [polypeptide binding]; other site 579405001032 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 579405001033 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 579405001034 active site 579405001035 dimerization interface [polypeptide binding]; other site 579405001036 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 579405001037 active site 579405001038 catalytic residues [active] 579405001039 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 579405001040 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 579405001041 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 579405001042 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405001043 Walker A/P-loop; other site 579405001044 ATP binding site [chemical binding]; other site 579405001045 Q-loop/lid; other site 579405001046 ABC transporter signature motif; other site 579405001047 Walker B; other site 579405001048 D-loop; other site 579405001049 H-loop/switch region; other site 579405001050 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 579405001051 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 579405001052 dimer interface [polypeptide binding]; other site 579405001053 conserved gate region; other site 579405001054 putative PBP binding loops; other site 579405001055 ABC-ATPase subunit interface; other site 579405001056 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 579405001057 dimer interface [polypeptide binding]; other site 579405001058 conserved gate region; other site 579405001059 putative PBP binding loops; other site 579405001060 ABC-ATPase subunit interface; other site 579405001061 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 579405001062 D-galactonate transporter; Region: 2A0114; TIGR00893 579405001063 putative substrate translocation pore; other site 579405001064 Domain of unknown function (DUF386); Region: DUF386; cl01047 579405001065 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 579405001066 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 579405001067 inhibitor site; inhibition site 579405001068 active site 579405001069 dimer interface [polypeptide binding]; other site 579405001070 catalytic residue [active] 579405001071 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 579405001072 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 579405001073 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK01287 579405001074 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 579405001075 active site 579405001076 DNA binding site [nucleotide binding] 579405001077 Int/Topo IB signature motif; other site 579405001078 CHC2 zinc finger; Region: zf-CHC2; cl17510 579405001079 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 579405001080 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 579405001081 active site 579405001082 metal binding site [ion binding]; metal-binding site 579405001083 interdomain interaction site; other site 579405001084 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 579405001085 non-specific DNA binding site [nucleotide binding]; other site 579405001086 salt bridge; other site 579405001087 sequence-specific DNA binding site [nucleotide binding]; other site 579405001088 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; pfam08845 579405001089 intramembrane serine protease GlpG; Provisional; Region: PRK10907 579405001090 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 579405001091 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 579405001092 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 579405001093 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 579405001094 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 579405001095 maltodextrin phosphorylase; Provisional; Region: PRK14985 579405001096 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 579405001097 homodimer interface [polypeptide binding]; other site 579405001098 active site pocket [active] 579405001099 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 579405001100 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 579405001101 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 579405001102 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 579405001103 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 579405001104 DNA utilization protein GntX; Provisional; Region: PRK11595 579405001105 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 579405001106 active site 579405001107 carboxylesterase BioH; Provisional; Region: PRK10349 579405001108 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 579405001109 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 579405001110 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 579405001111 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 579405001112 RNA binding site [nucleotide binding]; other site 579405001113 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 579405001114 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 579405001115 putative acyl-acceptor binding pocket; other site 579405001116 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 579405001117 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 579405001118 Sulfatase; Region: Sulfatase; cl17466 579405001119 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 579405001120 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 579405001121 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 579405001122 osmolarity response regulator; Provisional; Region: ompR; PRK09468 579405001123 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 579405001124 active site 579405001125 phosphorylation site [posttranslational modification] 579405001126 intermolecular recognition site; other site 579405001127 dimerization interface [polypeptide binding]; other site 579405001128 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 579405001129 DNA binding site [nucleotide binding] 579405001130 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 579405001131 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 579405001132 dimerization interface [polypeptide binding]; other site 579405001133 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 579405001134 dimer interface [polypeptide binding]; other site 579405001135 phosphorylation site [posttranslational modification] 579405001136 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 579405001137 ATP binding site [chemical binding]; other site 579405001138 Mg2+ binding site [ion binding]; other site 579405001139 G-X-G motif; other site 579405001140 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 579405001141 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 579405001142 active site 579405001143 substrate-binding site [chemical binding]; other site 579405001144 metal-binding site [ion binding] 579405001145 ATP binding site [chemical binding]; other site 579405001146 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 579405001147 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 579405001148 dimerization interface [polypeptide binding]; other site 579405001149 domain crossover interface; other site 579405001150 redox-dependent activation switch; other site 579405001151 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 579405001152 RNA binding surface [nucleotide binding]; other site 579405001153 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 579405001154 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 579405001155 motif II; other site 579405001156 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 579405001157 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 579405001158 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 579405001159 ADP-ribose binding site [chemical binding]; other site 579405001160 dimer interface [polypeptide binding]; other site 579405001161 active site 579405001162 nudix motif; other site 579405001163 metal binding site [ion binding]; metal-binding site 579405001164 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 579405001165 Transglycosylase; Region: Transgly; pfam00912 579405001166 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 579405001167 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 579405001168 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 579405001169 Protein of unknown function (DUF2531); Region: DUF2531; pfam10748 579405001170 putative outer membrane porin HofQ; Provisional; Region: hofQ; PRK13568 579405001171 Secretin and TonB N terminus short domain; Region: STN; smart00965 579405001172 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 579405001173 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 579405001174 shikimate kinase; Reviewed; Region: aroK; PRK00131 579405001175 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 579405001176 ADP binding site [chemical binding]; other site 579405001177 magnesium binding site [ion binding]; other site 579405001178 putative shikimate binding site; other site 579405001179 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 579405001180 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 579405001181 active site 579405001182 dimer interface [polypeptide binding]; other site 579405001183 metal binding site [ion binding]; metal-binding site 579405001184 hypothetical protein; Reviewed; Region: PRK11901 579405001185 cell division protein DamX; Validated; Region: PRK10905 579405001186 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 579405001187 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 579405001188 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 579405001189 substrate binding site [chemical binding]; other site 579405001190 hexamer interface [polypeptide binding]; other site 579405001191 metal binding site [ion binding]; metal-binding site 579405001192 phosphoglycolate phosphatase; Provisional; Region: PRK13222 579405001193 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 579405001194 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 579405001195 motif II; other site 579405001196 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 579405001197 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 579405001198 active site 579405001199 HIGH motif; other site 579405001200 dimer interface [polypeptide binding]; other site 579405001201 KMSKS motif; other site 579405001202 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 579405001203 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 4. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_4; cd03329 579405001204 putative active site pocket [active] 579405001205 metal binding site [ion binding]; metal-binding site 579405001206 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 579405001207 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 579405001208 substrate binding site [chemical binding]; other site 579405001209 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 579405001210 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 579405001211 metal binding site [ion binding]; metal-binding site 579405001212 active site 579405001213 I-site; other site 579405001214 Hemerythrin; Region: Hemerythrin; cd12107 579405001215 Fe binding site [ion binding]; other site 579405001216 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 579405001217 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 579405001218 putative C-terminal domain interface [polypeptide binding]; other site 579405001219 putative GSH binding site (G-site) [chemical binding]; other site 579405001220 putative dimer interface [polypeptide binding]; other site 579405001221 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 579405001222 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 579405001223 potential catalytic triad [active] 579405001224 conserved cys residue [active] 579405001225 Pectate lyase; Region: Pec_lyase_C; cl01593 579405001226 Pectate lyase; Region: Pec_lyase_C; cl01593 579405001227 Pectate lyase; Region: Pec_lyase_C; pfam00544 579405001228 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 579405001229 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 579405001230 catalytic residue [active] 579405001231 Neurotransmitter-gated ion-channel ligand binding domain; Region: Neur_chan_LBD; pfam02931 579405001232 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 579405001233 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 579405001234 Major Facilitator Superfamily; Region: MFS_1; pfam07690 579405001235 putative substrate translocation pore; other site 579405001236 Predicted chitinase [General function prediction only]; Region: COG3179 579405001237 catalytic residue [active] 579405001238 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 579405001239 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 579405001240 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405001241 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 579405001242 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405001243 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 579405001244 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 579405001245 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 579405001246 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 579405001247 glutamine binding [chemical binding]; other site 579405001248 catalytic triad [active] 579405001249 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 579405001250 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 579405001251 inhibitor-cofactor binding pocket; inhibition site 579405001252 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405001253 catalytic residue [active] 579405001254 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 579405001255 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 579405001256 ligand binding site [chemical binding]; other site 579405001257 flexible hinge region; other site 579405001258 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 579405001259 putative switch regulator; other site 579405001260 non-specific DNA interactions [nucleotide binding]; other site 579405001261 DNA binding site [nucleotide binding] 579405001262 sequence specific DNA binding site [nucleotide binding]; other site 579405001263 putative cAMP binding site [chemical binding]; other site 579405001264 hypothetical protein; Provisional; Region: PRK10738 579405001265 phosphoribulokinase; Provisional; Region: PRK15453 579405001266 active site 579405001267 hypothetical protein; Provisional; Region: PRK04966 579405001268 putative hydrolase; Provisional; Region: PRK10985 579405001269 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 579405001270 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 579405001271 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405001272 Walker A/P-loop; other site 579405001273 ATP binding site [chemical binding]; other site 579405001274 Q-loop/lid; other site 579405001275 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 579405001276 ABC transporter signature motif; other site 579405001277 Walker B; other site 579405001278 D-loop; other site 579405001279 ABC transporter; Region: ABC_tran_2; pfam12848 579405001280 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 579405001281 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 579405001282 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 579405001283 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 579405001284 TrkA-N domain; Region: TrkA_N; pfam02254 579405001285 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 579405001286 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 579405001287 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 579405001288 ethanolamine permease; Region: 2A0305; TIGR00908 579405001289 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 579405001290 active site 579405001291 substrate binding site [chemical binding]; other site 579405001292 Phosphotransferase enzyme family; Region: APH; pfam01636 579405001293 ATP binding site [chemical binding]; other site 579405001294 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 579405001295 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 579405001296 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405001297 SlyX; Region: SlyX; cl01090 579405001298 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 579405001299 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 579405001300 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 579405001301 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405001302 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 579405001303 DNA-binding site [nucleotide binding]; DNA binding site 579405001304 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 579405001305 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405001306 homodimer interface [polypeptide binding]; other site 579405001307 catalytic residue [active] 579405001308 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 579405001309 Predicted amidohydrolase [General function prediction only]; Region: COG0388 579405001310 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 579405001311 putative active site [active] 579405001312 catalytic triad [active] 579405001313 putative dimer interface [polypeptide binding]; other site 579405001314 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 579405001315 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 579405001316 substrate binding pocket [chemical binding]; other site 579405001317 membrane-bound complex binding site; other site 579405001318 hinge residues; other site 579405001319 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 579405001320 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 579405001321 dimer interface [polypeptide binding]; other site 579405001322 conserved gate region; other site 579405001323 putative PBP binding loops; other site 579405001324 ABC-ATPase subunit interface; other site 579405001325 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 579405001326 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 579405001327 Walker A/P-loop; other site 579405001328 ATP binding site [chemical binding]; other site 579405001329 Q-loop/lid; other site 579405001330 ABC transporter signature motif; other site 579405001331 Walker B; other site 579405001332 D-loop; other site 579405001333 H-loop/switch region; other site 579405001334 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405001335 sensor protein BasS/PmrB; Provisional; Region: PRK10755 579405001336 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 579405001337 dimer interface [polypeptide binding]; other site 579405001338 phosphorylation site [posttranslational modification] 579405001339 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 579405001340 ATP binding site [chemical binding]; other site 579405001341 Mg2+ binding site [ion binding]; other site 579405001342 G-X-G motif; other site 579405001343 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 579405001344 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 579405001345 active site 579405001346 phosphorylation site [posttranslational modification] 579405001347 intermolecular recognition site; other site 579405001348 dimerization interface [polypeptide binding]; other site 579405001349 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 579405001350 DNA binding site [nucleotide binding] 579405001351 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 579405001352 YheO-like PAS domain; Region: PAS_6; pfam08348 579405001353 HTH domain; Region: HTH_22; pfam13309 579405001354 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 579405001355 sulfur relay protein TusC; Validated; Region: PRK00211 579405001356 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 579405001357 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 579405001358 S17 interaction site [polypeptide binding]; other site 579405001359 S8 interaction site; other site 579405001360 16S rRNA interaction site [nucleotide binding]; other site 579405001361 streptomycin interaction site [chemical binding]; other site 579405001362 23S rRNA interaction site [nucleotide binding]; other site 579405001363 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 579405001364 30S ribosomal protein S7; Validated; Region: PRK05302 579405001365 elongation factor G; Reviewed; Region: PRK00007 579405001366 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 579405001367 G1 box; other site 579405001368 putative GEF interaction site [polypeptide binding]; other site 579405001369 GTP/Mg2+ binding site [chemical binding]; other site 579405001370 Switch I region; other site 579405001371 G2 box; other site 579405001372 G3 box; other site 579405001373 Switch II region; other site 579405001374 G4 box; other site 579405001375 G5 box; other site 579405001376 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 579405001377 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 579405001378 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 579405001379 elongation factor Tu; Reviewed; Region: PRK00049 579405001380 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 579405001381 G1 box; other site 579405001382 GEF interaction site [polypeptide binding]; other site 579405001383 GTP/Mg2+ binding site [chemical binding]; other site 579405001384 Switch I region; other site 579405001385 G2 box; other site 579405001386 G3 box; other site 579405001387 Switch II region; other site 579405001388 G4 box; other site 579405001389 G5 box; other site 579405001390 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 579405001391 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 579405001392 Antibiotic Binding Site [chemical binding]; other site 579405001393 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 579405001394 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 579405001395 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 579405001396 heme binding site [chemical binding]; other site 579405001397 ferroxidase pore; other site 579405001398 ferroxidase diiron center [ion binding]; other site 579405001399 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 579405001400 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 579405001401 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 579405001402 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 579405001403 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 579405001404 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 579405001405 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 579405001406 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 579405001407 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 579405001408 protein-rRNA interface [nucleotide binding]; other site 579405001409 putative translocon binding site; other site 579405001410 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 579405001411 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 579405001412 G-X-X-G motif; other site 579405001413 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 579405001414 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 579405001415 23S rRNA interface [nucleotide binding]; other site 579405001416 5S rRNA interface [nucleotide binding]; other site 579405001417 putative antibiotic binding site [chemical binding]; other site 579405001418 L25 interface [polypeptide binding]; other site 579405001419 L27 interface [polypeptide binding]; other site 579405001420 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 579405001421 23S rRNA interface [nucleotide binding]; other site 579405001422 putative translocon interaction site; other site 579405001423 signal recognition particle (SRP54) interaction site; other site 579405001424 L23 interface [polypeptide binding]; other site 579405001425 trigger factor interaction site; other site 579405001426 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 579405001427 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 579405001428 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 579405001429 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 579405001430 RNA binding site [nucleotide binding]; other site 579405001431 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 579405001432 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 579405001433 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 579405001434 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 579405001435 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 579405001436 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 579405001437 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 579405001438 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 579405001439 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 579405001440 23S rRNA interface [nucleotide binding]; other site 579405001441 5S rRNA interface [nucleotide binding]; other site 579405001442 L27 interface [polypeptide binding]; other site 579405001443 L5 interface [polypeptide binding]; other site 579405001444 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 579405001445 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 579405001446 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 579405001447 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 579405001448 23S rRNA binding site [nucleotide binding]; other site 579405001449 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 579405001450 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 579405001451 SecY translocase; Region: SecY; pfam00344 579405001452 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 579405001453 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 579405001454 30S ribosomal protein S13; Region: bact_S13; TIGR03631 579405001455 30S ribosomal protein S11; Validated; Region: PRK05309 579405001456 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 579405001457 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 579405001458 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 579405001459 RNA binding surface [nucleotide binding]; other site 579405001460 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 579405001461 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 579405001462 alphaNTD homodimer interface [polypeptide binding]; other site 579405001463 alphaNTD - beta interaction site [polypeptide binding]; other site 579405001464 alphaNTD - beta' interaction site [polypeptide binding]; other site 579405001465 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 579405001466 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 579405001467 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 579405001468 Winged helix-turn helix; Region: HTH_29; pfam13551 579405001469 Helix-turn-helix domain; Region: HTH_28; pfam13518 579405001470 Homeodomain-like domain; Region: HTH_32; pfam13565 579405001471 Integrase core domain; Region: rve; pfam00665 579405001472 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 579405001473 Integrase core domain; Region: rve_3; pfam13683 579405001474 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 579405001475 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 579405001476 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 579405001477 TrkA-N domain; Region: TrkA_N; pfam02254 579405001478 TrkA-C domain; Region: TrkA_C; pfam02080 579405001479 TrkA-N domain; Region: TrkA_N; pfam02254 579405001480 TrkA-C domain; Region: TrkA_C; pfam02080 579405001481 16S rRNA methyltransferase B; Provisional; Region: PRK10901 579405001482 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 579405001483 putative RNA binding site [nucleotide binding]; other site 579405001484 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 579405001485 S-adenosylmethionine binding site [chemical binding]; other site 579405001486 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 579405001487 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 579405001488 putative active site [active] 579405001489 substrate binding site [chemical binding]; other site 579405001490 putative cosubstrate binding site; other site 579405001491 catalytic site [active] 579405001492 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 579405001493 substrate binding site [chemical binding]; other site 579405001494 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 579405001495 active site 579405001496 catalytic residues [active] 579405001497 metal binding site [ion binding]; metal-binding site 579405001498 hypothetical protein; Provisional; Region: PRK10736 579405001499 DNA protecting protein DprA; Region: dprA; TIGR00732 579405001500 hypothetical protein; Validated; Region: PRK03430 579405001501 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 579405001502 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 579405001503 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 579405001504 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 579405001505 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 579405001506 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 579405001507 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 579405001508 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 579405001509 shikimate binding site; other site 579405001510 NAD(P) binding site [chemical binding]; other site 579405001511 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 579405001512 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 579405001513 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 579405001514 trimer interface [polypeptide binding]; other site 579405001515 putative metal binding site [ion binding]; other site 579405001516 Helix-turn-helix domain; Region: HTH_28; pfam13518 579405001517 homoserine O-succinyltransferase; Provisional; Region: PRK05368 579405001518 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 579405001519 proposed active site lysine [active] 579405001520 conserved cys residue [active] 579405001521 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 579405001522 malate synthase A; Region: malate_syn_A; TIGR01344 579405001523 active site 579405001524 isocitrate lyase; Provisional; Region: PRK15063 579405001525 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 579405001526 tetramer interface [polypeptide binding]; other site 579405001527 active site 579405001528 Mg2+/Mn2+ binding site [ion binding]; other site 579405001529 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 579405001530 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 579405001531 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 579405001532 transcriptional repressor IclR; Provisional; Region: PRK11569 579405001533 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 579405001534 Bacterial transcriptional regulator; Region: IclR; pfam01614 579405001535 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 579405001536 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 579405001537 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 579405001538 substrate binding pocket [chemical binding]; other site 579405001539 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 579405001540 B12 binding site [chemical binding]; other site 579405001541 cobalt ligand [ion binding]; other site 579405001542 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 579405001543 AAA domain; Region: AAA_21; pfam13304 579405001544 TIGR02646 family protein; Region: TIGR02646 579405001545 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 579405001546 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 579405001547 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 579405001548 N-terminal plug; other site 579405001549 ligand-binding site [chemical binding]; other site 579405001550 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405001551 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405001552 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 579405001553 dimerization interface [polypeptide binding]; other site 579405001554 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 579405001555 putative substrate translocation pore; other site 579405001556 Major Facilitator Superfamily; Region: MFS_1; pfam07690 579405001557 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 579405001558 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 579405001559 aspartate kinase III; Validated; Region: PRK09084 579405001560 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 579405001561 nucleotide binding site [chemical binding]; other site 579405001562 substrate binding site [chemical binding]; other site 579405001563 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 579405001564 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 579405001565 dimer interface [polypeptide binding]; other site 579405001566 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 579405001567 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 579405001568 active site 579405001569 dimer interface [polypeptide binding]; other site 579405001570 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 579405001571 dimer interface [polypeptide binding]; other site 579405001572 active site 579405001573 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 579405001574 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 579405001575 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 579405001576 FeS/SAM binding site; other site 579405001577 elongation factor P; Validated; Region: PRK00529 579405001578 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 579405001579 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 579405001580 RNA binding site [nucleotide binding]; other site 579405001581 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 579405001582 RNA binding site [nucleotide binding]; other site 579405001583 Protein of unknown function, DUF486; Region: DUF486; cl01236 579405001584 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 579405001585 Iron-sulfur protein interface; other site 579405001586 proximal quinone binding site [chemical binding]; other site 579405001587 C-subunit interface; other site 579405001588 distal quinone binding site; other site 579405001589 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 579405001590 D-subunit interface [polypeptide binding]; other site 579405001591 Iron-sulfur protein interface; other site 579405001592 proximal quinone binding site [chemical binding]; other site 579405001593 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 579405001594 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 579405001595 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 579405001596 L-aspartate oxidase; Provisional; Region: PRK06175 579405001597 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 579405001598 poxB regulator PoxA; Provisional; Region: PRK09350 579405001599 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 579405001600 motif 1; other site 579405001601 dimer interface [polypeptide binding]; other site 579405001602 active site 579405001603 motif 2; other site 579405001604 motif 3; other site 579405001605 putative mechanosensitive channel protein; Provisional; Region: PRK10929 579405001606 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 579405001607 Mechanosensitive ion channel; Region: MS_channel; pfam00924 579405001608 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 579405001609 GTPase RsgA; Reviewed; Region: PRK12288 579405001610 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 579405001611 RNA binding site [nucleotide binding]; other site 579405001612 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 579405001613 GTPase/Zn-binding domain interface [polypeptide binding]; other site 579405001614 GTP/Mg2+ binding site [chemical binding]; other site 579405001615 G4 box; other site 579405001616 G5 box; other site 579405001617 G1 box; other site 579405001618 Switch I region; other site 579405001619 G2 box; other site 579405001620 G3 box; other site 579405001621 Switch II region; other site 579405001622 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 579405001623 catalytic site [active] 579405001624 putative active site [active] 579405001625 putative substrate binding site [chemical binding]; other site 579405001626 dimer interface [polypeptide binding]; other site 579405001627 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 579405001628 HlyD family secretion protein; Region: HlyD_3; pfam13437 579405001629 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 579405001630 HlyD family secretion protein; Region: HlyD_3; pfam13437 579405001631 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 579405001632 active site 579405001633 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 579405001634 HlyD family secretion protein; Region: HlyD_3; pfam13437 579405001635 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 579405001636 Phage Tail Collar Domain; Region: Collar; pfam07484 579405001637 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 579405001638 Phage Tail Collar Domain; Region: Collar; pfam07484 579405001639 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 579405001640 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 579405001641 Cadherin repeat-like domain; Region: CA_like; cl15786 579405001642 Ca2+ binding site [ion binding]; other site 579405001643 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 579405001644 Cadherin repeat-like domain; Region: CA_like; cl15786 579405001645 Ca2+ binding site [ion binding]; other site 579405001646 Outer membrane efflux protein; Region: OEP; pfam02321 579405001647 Outer membrane efflux protein; Region: OEP; pfam02321 579405001648 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 579405001649 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 579405001650 inhibitor-cofactor binding pocket; inhibition site 579405001651 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405001652 catalytic residue [active] 579405001653 arginine succinyltransferase; Provisional; Region: PRK10456 579405001654 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 579405001655 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 579405001656 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 579405001657 NAD(P) binding site [chemical binding]; other site 579405001658 catalytic residues [active] 579405001659 succinylarginine dihydrolase; Provisional; Region: PRK13281 579405001660 succinylglutamate desuccinylase; Provisional; Region: PRK05324 579405001661 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 579405001662 active site 579405001663 Zn binding site [ion binding]; other site 579405001664 hypothetical protein; Provisional; Region: PRK11667 579405001665 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 579405001666 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 579405001667 dimer interface [polypeptide binding]; other site 579405001668 PYR/PP interface [polypeptide binding]; other site 579405001669 TPP binding site [chemical binding]; other site 579405001670 substrate binding site [chemical binding]; other site 579405001671 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 579405001672 Domain of unknown function; Region: EKR; pfam10371 579405001673 4Fe-4S binding domain; Region: Fer4_6; pfam12837 579405001674 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 579405001675 TPP-binding site [chemical binding]; other site 579405001676 dimer interface [polypeptide binding]; other site 579405001677 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 579405001678 nitrogenase iron protein; Region: nifH; TIGR01287 579405001679 Nucleotide-binding sites [chemical binding]; other site 579405001680 Walker A motif; other site 579405001681 Switch I region of nucleotide binding site; other site 579405001682 Fe4S4 binding sites [ion binding]; other site 579405001683 Switch II region of nucleotide binding site; other site 579405001684 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 579405001685 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 579405001686 MoFe protein alpha/beta subunit interactions; other site 579405001687 Alpha subunit P cluster binding residues; other site 579405001688 FeMoco binding residues [chemical binding]; other site 579405001689 MoFe protein alpha subunit/Fe protein contacts; other site 579405001690 MoFe protein dimer/ dimer interactions; other site 579405001691 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 579405001692 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 579405001693 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 579405001694 MoFe protein beta/alpha subunit interactions; other site 579405001695 Beta subunit P cluster binding residues; other site 579405001696 MoFe protein beta subunit/Fe protein contacts; other site 579405001697 MoFe protein dimer/ dimer interactions; other site 579405001698 NifT/FixU protein; Region: NifT; pfam06988 579405001699 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 579405001700 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 579405001701 dimer interface [polypeptide binding]; other site 579405001702 ligand binding site [chemical binding]; other site 579405001703 HAMP domain; Region: HAMP; pfam00672 579405001704 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405001705 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405001706 dimer interface [polypeptide binding]; other site 579405001707 putative CheW interface [polypeptide binding]; other site 579405001708 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 579405001709 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 579405001710 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 579405001711 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 579405001712 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 579405001713 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 579405001714 active site 579405001715 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 579405001716 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 579405001717 trimerization site [polypeptide binding]; other site 579405001718 active site 579405001719 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 579405001720 NifU-like domain; Region: NifU; pfam01106 579405001721 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 579405001722 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 579405001723 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 579405001724 catalytic residue [active] 579405001725 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 579405001726 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 579405001727 active site 579405001728 catalytic residues [active] 579405001729 metal binding site [ion binding]; metal-binding site 579405001730 Nitrogen fixation protein NifW; Region: NifW; cl03935 579405001731 NifZ domain; Region: NifZ; pfam04319 579405001732 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 579405001733 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 579405001734 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405001735 Coenzyme A binding pocket [chemical binding]; other site 579405001736 flavodoxin FldA; Validated; Region: PRK09267 579405001737 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 579405001738 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 579405001739 putative active site [active] 579405001740 heme pocket [chemical binding]; other site 579405001741 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 579405001742 ATP binding site [chemical binding]; other site 579405001743 G-X-G motif; other site 579405001744 Nif-specific regulatory protein; Region: nifA; TIGR01817 579405001745 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 579405001746 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 579405001747 Walker A motif; other site 579405001748 ATP binding site [chemical binding]; other site 579405001749 Walker B motif; other site 579405001750 arginine finger; other site 579405001751 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 579405001752 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 579405001753 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 579405001754 FeS/SAM binding site; other site 579405001755 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 579405001756 NifQ; Region: NifQ; pfam04891 579405001757 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 579405001758 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405001759 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 579405001760 dimerization interface [polypeptide binding]; other site 579405001761 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 579405001762 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 579405001763 putative metal binding site [ion binding]; other site 579405001764 dimer interface [polypeptide binding]; other site 579405001765 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 579405001766 amidohydrolase; Region: amidohydrolases; TIGR01891 579405001767 putative metal binding site [ion binding]; other site 579405001768 putative aminobenzoyl-glutamate transporter; Provisional; Region: abgT; PRK11339 579405001769 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 579405001770 Transcriptional regulators [Transcription]; Region: MarR; COG1846 579405001771 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 579405001772 putative Zn2+ binding site [ion binding]; other site 579405001773 putative DNA binding site [nucleotide binding]; other site 579405001774 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 579405001775 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 579405001776 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 579405001777 Walker A/P-loop; other site 579405001778 ATP binding site [chemical binding]; other site 579405001779 Q-loop/lid; other site 579405001780 ABC transporter signature motif; other site 579405001781 Walker B; other site 579405001782 D-loop; other site 579405001783 H-loop/switch region; other site 579405001784 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405001785 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 579405001786 dimer interface [polypeptide binding]; other site 579405001787 conserved gate region; other site 579405001788 putative PBP binding loops; other site 579405001789 ABC-ATPase subunit interface; other site 579405001790 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405001791 Coenzyme A binding pocket [chemical binding]; other site 579405001792 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 579405001793 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 579405001794 substrate binding pocket [chemical binding]; other site 579405001795 membrane-bound complex binding site; other site 579405001796 hinge residues; other site 579405001797 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 579405001798 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 579405001799 substrate binding pocket [chemical binding]; other site 579405001800 membrane-bound complex binding site; other site 579405001801 hinge residues; other site 579405001802 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 579405001803 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 579405001804 active site 579405001805 non-prolyl cis peptide bond; other site 579405001806 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 579405001807 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 579405001808 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 579405001809 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 579405001810 NAD binding site [chemical binding]; other site 579405001811 ligand binding site [chemical binding]; other site 579405001812 catalytic site [active] 579405001813 epoxyqueuosine reductase; Region: TIGR00276 579405001814 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 579405001815 putative carbohydrate kinase; Provisional; Region: PRK10565 579405001816 Uncharacterized conserved protein [Function unknown]; Region: COG0062 579405001817 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 579405001818 putative substrate binding site [chemical binding]; other site 579405001819 putative ATP binding site [chemical binding]; other site 579405001820 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 579405001821 AMIN domain; Region: AMIN; pfam11741 579405001822 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 579405001823 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 579405001824 active site 579405001825 metal binding site [ion binding]; metal-binding site 579405001826 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 579405001827 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 579405001828 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 579405001829 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 579405001830 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 579405001831 ATP binding site [chemical binding]; other site 579405001832 Mg2+ binding site [ion binding]; other site 579405001833 G-X-G motif; other site 579405001834 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 579405001835 ATP binding site [chemical binding]; other site 579405001836 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 579405001837 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 579405001838 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 579405001839 bacterial Hfq-like; Region: Hfq; cd01716 579405001840 hexamer interface [polypeptide binding]; other site 579405001841 Sm1 motif; other site 579405001842 RNA binding site [nucleotide binding]; other site 579405001843 Sm2 motif; other site 579405001844 GTPase HflX; Provisional; Region: PRK11058 579405001845 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 579405001846 HflX GTPase family; Region: HflX; cd01878 579405001847 G1 box; other site 579405001848 GTP/Mg2+ binding site [chemical binding]; other site 579405001849 Switch I region; other site 579405001850 G2 box; other site 579405001851 G3 box; other site 579405001852 Switch II region; other site 579405001853 G4 box; other site 579405001854 G5 box; other site 579405001855 FtsH protease regulator HflK; Provisional; Region: PRK10930 579405001856 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 579405001857 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 579405001858 FtsH protease regulator HflC; Provisional; Region: PRK11029 579405001859 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 579405001860 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 579405001861 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 579405001862 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 579405001863 GDP-binding site [chemical binding]; other site 579405001864 ACT binding site; other site 579405001865 IMP binding site; other site 579405001866 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 579405001867 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 579405001868 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 579405001869 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 579405001870 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 579405001871 AMP binding site [chemical binding]; other site 579405001872 metal binding site [ion binding]; metal-binding site 579405001873 active site 579405001874 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 579405001875 hypothetical protein; Validated; Region: PRK00228 579405001876 glutathione synthetase; Provisional; Region: PRK05246 579405001877 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 579405001878 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 579405001879 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 579405001880 RNA methyltransferase, RsmE family; Region: TIGR00046 579405001881 DNA-specific endonuclease I; Provisional; Region: PRK15137 579405001882 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 579405001883 hypothetical protein; Provisional; Region: PRK04860 579405001884 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 579405001885 S-adenosylmethionine synthetase; Validated; Region: PRK05250 579405001886 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 579405001887 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 579405001888 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 579405001889 arginine decarboxylase; Provisional; Region: PRK05354 579405001890 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 579405001891 dimer interface [polypeptide binding]; other site 579405001892 active site 579405001893 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 579405001894 catalytic residues [active] 579405001895 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 579405001896 putative transporter; Provisional; Region: PRK03699 579405001897 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 579405001898 putative substrate translocation pore; other site 579405001899 transketolase; Reviewed; Region: PRK12753 579405001900 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 579405001901 TPP-binding site [chemical binding]; other site 579405001902 dimer interface [polypeptide binding]; other site 579405001903 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 579405001904 PYR/PP interface [polypeptide binding]; other site 579405001905 dimer interface [polypeptide binding]; other site 579405001906 TPP binding site [chemical binding]; other site 579405001907 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 579405001908 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 579405001909 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 579405001910 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 579405001911 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 579405001912 Phosphoglycerate kinase; Region: PGK; pfam00162 579405001913 substrate binding site [chemical binding]; other site 579405001914 hinge regions; other site 579405001915 ADP binding site [chemical binding]; other site 579405001916 catalytic site [active] 579405001917 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 579405001918 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 579405001919 active site 579405001920 intersubunit interface [polypeptide binding]; other site 579405001921 zinc binding site [ion binding]; other site 579405001922 Na+ binding site [ion binding]; other site 579405001923 mechanosensitive channel MscS; Provisional; Region: PRK10334 579405001924 Conserved TM helix; Region: TM_helix; pfam05552 579405001925 Mechanosensitive ion channel; Region: MS_channel; pfam00924 579405001926 arginine exporter protein; Provisional; Region: PRK09304 579405001927 Uncharacterized conserved protein [Function unknown]; Region: COG2968 579405001928 oxidative stress defense protein; Provisional; Region: PRK11087 579405001929 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 579405001930 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405001931 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 579405001932 putative dimerization interface [polypeptide binding]; other site 579405001933 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 579405001934 tetramer (dimer of dimers) interface [polypeptide binding]; other site 579405001935 active site 579405001936 dimer interface [polypeptide binding]; other site 579405001937 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 579405001938 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 579405001939 ligand binding site [chemical binding]; other site 579405001940 NAD binding site [chemical binding]; other site 579405001941 tetramer interface [polypeptide binding]; other site 579405001942 catalytic site [active] 579405001943 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 579405001944 L-serine binding site [chemical binding]; other site 579405001945 ACT domain interface; other site 579405001946 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 579405001947 dimer interface [polypeptide binding]; other site 579405001948 ligand binding site [chemical binding]; other site 579405001949 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 579405001950 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 579405001951 dimerization interface [polypeptide binding]; other site 579405001952 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405001953 dimer interface [polypeptide binding]; other site 579405001954 putative CheW interface [polypeptide binding]; other site 579405001955 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 579405001956 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 579405001957 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 579405001958 ABC transporter; Region: ABC_tran_2; pfam12848 579405001959 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 579405001960 lytic murein transglycosylase; Provisional; Region: PRK11619 579405001961 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 579405001962 N-acetyl-D-glucosamine binding site [chemical binding]; other site 579405001963 catalytic residue [active] 579405001964 Trp operon repressor; Provisional; Region: PRK01381 579405001965 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 579405001966 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 579405001967 catalytic core [active] 579405001968 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 579405001969 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405001970 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 579405001971 hypothetical protein; Provisional; Region: PRK10756 579405001972 CreA protein; Region: CreA; pfam05981 579405001973 two-component response regulator; Provisional; Region: PRK11173 579405001974 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 579405001975 active site 579405001976 phosphorylation site [posttranslational modification] 579405001977 intermolecular recognition site; other site 579405001978 dimerization interface [polypeptide binding]; other site 579405001979 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 579405001980 DNA binding site [nucleotide binding] 579405001981 putative RNA methyltransferase; Provisional; Region: PRK10433 579405001982 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050 579405001983 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 579405001984 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 579405001985 putative catalytic residues [active] 579405001986 putative nucleotide binding site [chemical binding]; other site 579405001987 putative aspartate binding site [chemical binding]; other site 579405001988 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 579405001989 dimer interface [polypeptide binding]; other site 579405001990 putative threonine allosteric regulatory site; other site 579405001991 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 579405001992 putative threonine allosteric regulatory site; other site 579405001993 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 579405001994 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 579405001995 homoserine kinase; Provisional; Region: PRK01212 579405001996 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 579405001997 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 579405001998 threonine synthase; Validated; Region: PRK09225 579405001999 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 579405002000 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 579405002001 catalytic residue [active] 579405002002 hypothetical protein; Validated; Region: PRK02101 579405002003 transaldolase-like protein; Provisional; Region: PTZ00411 579405002004 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 579405002005 active site 579405002006 dimer interface [polypeptide binding]; other site 579405002007 catalytic residue [active] 579405002008 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 579405002009 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 579405002010 metal binding site [ion binding]; metal-binding site 579405002011 active site 579405002012 I-site; other site 579405002013 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 579405002014 MPT binding site; other site 579405002015 trimer interface [polypeptide binding]; other site 579405002016 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 579405002017 metabolite-proton symporter; Region: 2A0106; TIGR00883 579405002018 putative substrate translocation pore; other site 579405002019 hypothetical protein; Provisional; Region: PRK10659 579405002020 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 579405002021 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 579405002022 nucleotide binding site [chemical binding]; other site 579405002023 chaperone protein DnaJ; Provisional; Region: PRK10767 579405002024 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 579405002025 HSP70 interaction site [polypeptide binding]; other site 579405002026 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 579405002027 substrate binding site [polypeptide binding]; other site 579405002028 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 579405002029 Zn binding sites [ion binding]; other site 579405002030 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 579405002031 dimer interface [polypeptide binding]; other site 579405002032 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 579405002033 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 579405002034 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405002035 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 579405002036 putative dimerization interface [polypeptide binding]; other site 579405002037 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 579405002038 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 579405002039 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 579405002040 active site 579405002041 Riboflavin kinase; Region: Flavokinase; smart00904 579405002042 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 579405002043 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 579405002044 active site 579405002045 HIGH motif; other site 579405002046 nucleotide binding site [chemical binding]; other site 579405002047 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 579405002048 active site 579405002049 KMSKS motif; other site 579405002050 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 579405002051 tRNA binding surface [nucleotide binding]; other site 579405002052 anticodon binding site; other site 579405002053 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 579405002054 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 579405002055 lipoprotein signal peptidase; Provisional; Region: PRK14787 579405002056 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 579405002057 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 579405002058 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 579405002059 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 579405002060 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 579405002061 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 579405002062 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 579405002063 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 579405002064 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 579405002065 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 579405002066 catalytic site [active] 579405002067 subunit interface [polypeptide binding]; other site 579405002068 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 579405002069 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 579405002070 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 579405002071 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 579405002072 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 579405002073 ATP-grasp domain; Region: ATP-grasp_4; cl17255 579405002074 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 579405002075 IMP binding site; other site 579405002076 dimer interface [polypeptide binding]; other site 579405002077 interdomain contacts; other site 579405002078 partial ornithine binding site; other site 579405002079 LysE type translocator; Region: LysE; cl00565 579405002080 Uncharacterized conserved protein [Function unknown]; Region: COG2966 579405002081 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 579405002082 hypothetical protein; Provisional; Region: PRK09917 579405002083 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 579405002084 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 579405002085 folate binding site [chemical binding]; other site 579405002086 NADP+ binding site [chemical binding]; other site 579405002087 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 579405002088 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 579405002089 active site 579405002090 metal binding site [ion binding]; metal-binding site 579405002091 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 579405002092 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 579405002093 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 579405002094 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 579405002095 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 579405002096 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 579405002097 SurA N-terminal domain; Region: SurA_N; pfam09312 579405002098 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 579405002099 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 579405002100 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 579405002101 OstA-like protein; Region: OstA; cl00844 579405002102 OstA-like protein; Region: OstA; pfam03968 579405002103 Organic solvent tolerance protein; Region: OstA_C; pfam04453 579405002104 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 579405002105 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 579405002106 putative metal binding site [ion binding]; other site 579405002107 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 579405002108 HSP70 interaction site [polypeptide binding]; other site 579405002109 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 579405002110 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 579405002111 active site 579405002112 ATP-dependent helicase HepA; Validated; Region: PRK04914 579405002113 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 579405002114 ATP binding site [chemical binding]; other site 579405002115 putative Mg++ binding site [ion binding]; other site 579405002116 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 579405002117 nucleotide binding region [chemical binding]; other site 579405002118 ATP-binding site [chemical binding]; other site 579405002119 DNA polymerase II; Reviewed; Region: PRK05762 579405002120 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 579405002121 active site 579405002122 catalytic site [active] 579405002123 substrate binding site [chemical binding]; other site 579405002124 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 579405002125 active site 579405002126 metal-binding site 579405002127 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 579405002128 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 579405002129 putative ligand binding site [chemical binding]; other site 579405002130 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 579405002131 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 579405002132 TM-ABC transporter signature motif; other site 579405002133 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 579405002134 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 579405002135 TM-ABC transporter signature motif; other site 579405002136 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 579405002137 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 579405002138 Walker A/P-loop; other site 579405002139 ATP binding site [chemical binding]; other site 579405002140 Q-loop/lid; other site 579405002141 ABC transporter signature motif; other site 579405002142 Walker B; other site 579405002143 D-loop; other site 579405002144 H-loop/switch region; other site 579405002145 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 579405002146 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 579405002147 Walker A/P-loop; other site 579405002148 ATP binding site [chemical binding]; other site 579405002149 Q-loop/lid; other site 579405002150 ABC transporter signature motif; other site 579405002151 Walker B; other site 579405002152 D-loop; other site 579405002153 H-loop/switch region; other site 579405002154 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 579405002155 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 579405002156 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405002157 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405002158 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 579405002159 putative effector binding pocket; other site 579405002160 dimerization interface [polypeptide binding]; other site 579405002161 alanine-tRNA ligase; Region: PLN02961 579405002162 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 579405002163 LysE type translocator; Region: LysE; cl00565 579405002164 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 579405002165 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 579405002166 putative valine binding site [chemical binding]; other site 579405002167 dimer interface [polypeptide binding]; other site 579405002168 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 579405002169 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 579405002170 PYR/PP interface [polypeptide binding]; other site 579405002171 dimer interface [polypeptide binding]; other site 579405002172 TPP binding site [chemical binding]; other site 579405002173 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 579405002174 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 579405002175 TPP-binding site [chemical binding]; other site 579405002176 dimer interface [polypeptide binding]; other site 579405002177 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 579405002178 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405002179 Walker A/P-loop; other site 579405002180 ATP binding site [chemical binding]; other site 579405002181 Q-loop/lid; other site 579405002182 ABC transporter signature motif; other site 579405002183 Walker B; other site 579405002184 D-loop; other site 579405002185 H-loop/switch region; other site 579405002186 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 579405002187 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 579405002188 dimer interface [polypeptide binding]; other site 579405002189 conserved gate region; other site 579405002190 putative PBP binding loops; other site 579405002191 ABC-ATPase subunit interface; other site 579405002192 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 579405002193 dimer interface [polypeptide binding]; other site 579405002194 conserved gate region; other site 579405002195 putative PBP binding loops; other site 579405002196 ABC-ATPase subunit interface; other site 579405002197 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 579405002198 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 579405002199 transcriptional regulator SgrR; Provisional; Region: PRK13626 579405002200 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 579405002201 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 579405002202 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 579405002203 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 579405002204 substrate binding site [chemical binding]; other site 579405002205 tetramer interface [polypeptide binding]; other site 579405002206 catalytic residue [active] 579405002207 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 579405002208 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 579405002209 FAD binding pocket [chemical binding]; other site 579405002210 FAD binding motif [chemical binding]; other site 579405002211 phosphate binding motif [ion binding]; other site 579405002212 NAD binding pocket [chemical binding]; other site 579405002213 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 579405002214 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 579405002215 substrate binding site [chemical binding]; other site 579405002216 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 579405002217 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 579405002218 substrate binding site [chemical binding]; other site 579405002219 ligand binding site [chemical binding]; other site 579405002220 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 579405002221 tartrate dehydrogenase; Region: TTC; TIGR02089 579405002222 2-isopropylmalate synthase; Validated; Region: PRK00915 579405002223 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 579405002224 active site 579405002225 catalytic residues [active] 579405002226 metal binding site [ion binding]; metal-binding site 579405002227 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 579405002228 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 579405002229 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 579405002230 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 579405002231 acyl-activating enzyme (AAE) consensus motif; other site 579405002232 putative AMP binding site [chemical binding]; other site 579405002233 putative active site [active] 579405002234 putative CoA binding site [chemical binding]; other site 579405002235 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 579405002236 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 579405002237 PYR/PP interface [polypeptide binding]; other site 579405002238 dimer interface [polypeptide binding]; other site 579405002239 TPP binding site [chemical binding]; other site 579405002240 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 579405002241 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 579405002242 TPP-binding site [chemical binding]; other site 579405002243 dimer interface [polypeptide binding]; other site 579405002244 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 579405002245 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 579405002246 putative valine binding site [chemical binding]; other site 579405002247 dimer interface [polypeptide binding]; other site 579405002248 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 579405002249 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 579405002250 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 579405002251 DNA binding site [nucleotide binding] 579405002252 domain linker motif; other site 579405002253 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 579405002254 dimerization interface [polypeptide binding]; other site 579405002255 ligand binding site [chemical binding]; other site 579405002256 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 579405002257 cell division protein MraZ; Reviewed; Region: PRK00326 579405002258 MraZ protein; Region: MraZ; pfam02381 579405002259 MraZ protein; Region: MraZ; pfam02381 579405002260 MraW methylase family; Region: Methyltransf_5; pfam01795 579405002261 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 579405002262 cell division protein FtsL; Provisional; Region: PRK10772 579405002263 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 579405002264 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 579405002265 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 579405002266 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 579405002267 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 579405002268 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 579405002269 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 579405002270 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 579405002271 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 579405002272 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 579405002273 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 579405002274 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 579405002275 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 579405002276 Mg++ binding site [ion binding]; other site 579405002277 putative catalytic motif [active] 579405002278 putative substrate binding site [chemical binding]; other site 579405002279 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 579405002280 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 579405002281 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 579405002282 cell division protein FtsW; Provisional; Region: PRK10774 579405002283 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 579405002284 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 579405002285 active site 579405002286 homodimer interface [polypeptide binding]; other site 579405002287 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 579405002288 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 579405002289 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 579405002290 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 579405002291 cell division protein FtsQ; Provisional; Region: PRK10775 579405002292 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 579405002293 Cell division protein FtsQ; Region: FtsQ; pfam03799 579405002294 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 579405002295 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 579405002296 Cell division protein FtsA; Region: FtsA; pfam14450 579405002297 cell division protein FtsZ; Validated; Region: PRK09330 579405002298 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 579405002299 nucleotide binding site [chemical binding]; other site 579405002300 SulA interaction site; other site 579405002301 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 579405002302 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 579405002303 Protein of unknown function (DUF721); Region: DUF721; cl02324 579405002304 SecA regulator SecM; Provisional; Region: PRK02943 579405002305 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 579405002306 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 579405002307 SEC-C motif; Region: SEC-C; pfam02810 579405002308 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 579405002309 active site 579405002310 8-oxo-dGMP binding site [chemical binding]; other site 579405002311 nudix motif; other site 579405002312 metal binding site [ion binding]; metal-binding site 579405002313 DNA gyrase inhibitor; Reviewed; Region: PRK00418 579405002314 hypothetical protein; Provisional; Region: PRK05287 579405002315 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 579405002316 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 579405002317 CoA-binding site [chemical binding]; other site 579405002318 ATP-binding [chemical binding]; other site 579405002319 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 579405002320 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 579405002321 active site 579405002322 type IV pilin biogenesis protein; Provisional; Region: PRK10573 579405002323 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 579405002324 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 579405002325 hypothetical protein; Provisional; Region: PRK10436 579405002326 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 579405002327 Walker A motif; other site 579405002328 ATP binding site [chemical binding]; other site 579405002329 Walker B motif; other site 579405002330 putative major pilin subunit; Provisional; Region: PRK10574 579405002331 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 579405002332 Pilin (bacterial filament); Region: Pilin; pfam00114 579405002333 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 579405002334 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 579405002335 dimerization interface [polypeptide binding]; other site 579405002336 active site 579405002337 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 579405002338 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 579405002339 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 579405002340 amidase catalytic site [active] 579405002341 Zn binding residues [ion binding]; other site 579405002342 substrate binding site [chemical binding]; other site 579405002343 regulatory protein AmpE; Provisional; Region: PRK10987 579405002344 aromatic amino acid transporter; Provisional; Region: PRK10238 579405002345 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 579405002346 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405002347 DNA-binding site [nucleotide binding]; DNA binding site 579405002348 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 579405002349 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 579405002350 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 579405002351 dimer interface [polypeptide binding]; other site 579405002352 TPP-binding site [chemical binding]; other site 579405002353 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 579405002354 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 579405002355 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 579405002356 E3 interaction surface; other site 579405002357 lipoyl attachment site [posttranslational modification]; other site 579405002358 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 579405002359 E3 interaction surface; other site 579405002360 lipoyl attachment site [posttranslational modification]; other site 579405002361 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 579405002362 E3 interaction surface; other site 579405002363 lipoyl attachment site [posttranslational modification]; other site 579405002364 e3 binding domain; Region: E3_binding; pfam02817 579405002365 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 579405002366 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 579405002367 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 579405002368 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 579405002369 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 579405002370 Abhydrolase family; Region: Abhydrolase_7; pfam12715 579405002371 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 579405002372 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 579405002373 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 579405002374 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 579405002375 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405002376 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405002377 outer membrane receptor FepA; Provisional; Region: PRK13524 579405002378 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 579405002379 N-terminal plug; other site 579405002380 ligand-binding site [chemical binding]; other site 579405002381 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 579405002382 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 579405002383 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 579405002384 substrate binding site [chemical binding]; other site 579405002385 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 579405002386 substrate binding site [chemical binding]; other site 579405002387 ligand binding site [chemical binding]; other site 579405002388 hypothetical protein; Provisional; Region: PRK05248 579405002389 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 579405002390 classical (c) SDRs; Region: SDR_c; cd05233 579405002391 NAD(P) binding site [chemical binding]; other site 579405002392 active site 579405002393 Domain of unknown function (DUF386); Region: DUF386; cl01047 579405002394 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 579405002395 BNR repeat-like domain; Region: BNR_2; pfam13088 579405002396 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 579405002397 Na binding site [ion binding]; other site 579405002398 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 579405002399 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 579405002400 inhibitor site; inhibition site 579405002401 active site 579405002402 dimer interface [polypeptide binding]; other site 579405002403 catalytic residue [active] 579405002404 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 579405002405 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 579405002406 putative active site [active] 579405002407 metal binding site [ion binding]; metal-binding site 579405002408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 579405002409 4-hydroxythreonine-4-phosphate dehydrogenase 2; Provisional; Region: pdxA; PRK03371 579405002410 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 579405002411 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 579405002412 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 579405002413 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 579405002414 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 579405002415 active site 579405002416 catalytic residues [active] 579405002417 Transcriptional regulators [Transcription]; Region: PurR; COG1609 579405002418 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 579405002419 DNA binding site [nucleotide binding] 579405002420 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 579405002421 ligand binding site [chemical binding]; other site 579405002422 dimerization interface [polypeptide binding]; other site 579405002423 fructokinase; Reviewed; Region: PRK09557 579405002424 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 579405002425 nucleotide binding site [chemical binding]; other site 579405002426 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 579405002427 active site 579405002428 catalytic site [active] 579405002429 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 579405002430 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 579405002431 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 579405002432 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 579405002433 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 579405002434 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 579405002435 dimer interface [polypeptide binding]; other site 579405002436 conserved gate region; other site 579405002437 putative PBP binding loops; other site 579405002438 ABC-ATPase subunit interface; other site 579405002439 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 579405002440 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 579405002441 dimer interface [polypeptide binding]; other site 579405002442 conserved gate region; other site 579405002443 putative PBP binding loops; other site 579405002444 ABC-ATPase subunit interface; other site 579405002445 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 579405002446 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 579405002447 Walker A/P-loop; other site 579405002448 ATP binding site [chemical binding]; other site 579405002449 Q-loop/lid; other site 579405002450 ABC transporter signature motif; other site 579405002451 Walker B; other site 579405002452 D-loop; other site 579405002453 H-loop/switch region; other site 579405002454 TOBE domain; Region: TOBE; pfam03459 579405002455 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 579405002456 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 579405002457 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 579405002458 metal binding site [ion binding]; metal-binding site 579405002459 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 579405002460 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 579405002461 ABC-ATPase subunit interface; other site 579405002462 dimer interface [polypeptide binding]; other site 579405002463 putative PBP binding regions; other site 579405002464 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 579405002465 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 579405002466 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 579405002467 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 579405002468 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 579405002469 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 579405002470 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 579405002471 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 579405002472 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 579405002473 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 579405002474 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 579405002475 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 579405002476 Walker A/P-loop; other site 579405002477 ATP binding site [chemical binding]; other site 579405002478 Q-loop/lid; other site 579405002479 ABC transporter signature motif; other site 579405002480 Walker B; other site 579405002481 D-loop; other site 579405002482 H-loop/switch region; other site 579405002483 TOBE domain; Region: TOBE_2; pfam08402 579405002484 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 579405002485 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 579405002486 ABC-ATPase subunit interface; other site 579405002487 putative PBP binding loops; other site 579405002488 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 579405002489 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 579405002490 dimer interface [polypeptide binding]; other site 579405002491 conserved gate region; other site 579405002492 putative PBP binding loops; other site 579405002493 ABC-ATPase subunit interface; other site 579405002494 Transcriptional regulators [Transcription]; Region: PurR; COG1609 579405002495 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 579405002496 DNA binding site [nucleotide binding] 579405002497 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 579405002498 ligand binding site [chemical binding]; other site 579405002499 dimerization interface [polypeptide binding]; other site 579405002500 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 579405002501 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 579405002502 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 579405002503 putative active site [active] 579405002504 putative NTP binding site [chemical binding]; other site 579405002505 putative nucleic acid binding site [nucleotide binding]; other site 579405002506 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 579405002507 Type II intron maturase; Region: Intron_maturas2; pfam01348 579405002508 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 579405002509 active site 579405002510 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 579405002511 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 579405002512 dimer interface [polypeptide binding]; other site 579405002513 ssDNA binding site [nucleotide binding]; other site 579405002514 tetramer (dimer of dimers) interface [polypeptide binding]; other site 579405002515 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 579405002516 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 579405002517 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 579405002518 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 579405002519 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 579405002520 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 579405002521 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 579405002522 metal binding site [ion binding]; metal-binding site 579405002523 active site 579405002524 I-site; other site 579405002525 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 579405002526 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 579405002527 dimerization interface [polypeptide binding]; other site 579405002528 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405002529 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405002530 dimer interface [polypeptide binding]; other site 579405002531 putative CheW interface [polypeptide binding]; other site 579405002532 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 579405002533 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 579405002534 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 579405002535 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 579405002536 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 579405002537 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 579405002538 CRISPR-associated endonuclease Cas1, subtype I-F/YPEST; Region: cas1_YPEST; TIGR03637 579405002539 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 579405002540 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 579405002541 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405002542 homodimer interface [polypeptide binding]; other site 579405002543 catalytic residue [active] 579405002544 Uncharacterized conserved protein [Function unknown]; Region: COG1284 579405002545 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 579405002546 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 579405002547 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 579405002548 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 579405002549 AsnC family; Region: AsnC_trans_reg; pfam01037 579405002550 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 579405002551 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 579405002552 substrate binding pocket [chemical binding]; other site 579405002553 membrane-bound complex binding site; other site 579405002554 hinge residues; other site 579405002555 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 579405002556 alanine racemase; Reviewed; Region: alr; PRK00053 579405002557 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 579405002558 active site 579405002559 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 579405002560 substrate binding site [chemical binding]; other site 579405002561 catalytic residues [active] 579405002562 dimer interface [polypeptide binding]; other site 579405002563 replicative DNA helicase; Provisional; Region: PRK08006 579405002564 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 579405002565 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 579405002566 Walker A motif; other site 579405002567 ATP binding site [chemical binding]; other site 579405002568 Walker B motif; other site 579405002569 DNA binding loops [nucleotide binding] 579405002570 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 579405002571 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 579405002572 NADP binding site [chemical binding]; other site 579405002573 dimer interface [polypeptide binding]; other site 579405002574 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 579405002575 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 579405002576 FMN binding site [chemical binding]; other site 579405002577 active site 579405002578 catalytic residues [active] 579405002579 substrate binding site [chemical binding]; other site 579405002580 transcriptional regulator protein; Region: phnR; TIGR03337 579405002581 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405002582 DNA-binding site [nucleotide binding]; DNA binding site 579405002583 UTRA domain; Region: UTRA; pfam07702 579405002584 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 579405002585 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 579405002586 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 579405002587 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 579405002588 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 579405002589 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 579405002590 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 579405002591 putative PBP binding loops; other site 579405002592 dimer interface [polypeptide binding]; other site 579405002593 ABC-ATPase subunit interface; other site 579405002594 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 579405002595 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405002596 Walker A/P-loop; other site 579405002597 ATP binding site [chemical binding]; other site 579405002598 Q-loop/lid; other site 579405002599 ABC transporter signature motif; other site 579405002600 Walker B; other site 579405002601 D-loop; other site 579405002602 H-loop/switch region; other site 579405002603 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 579405002604 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 579405002605 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 579405002606 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405002607 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 579405002608 dimerization interface [polypeptide binding]; other site 579405002609 diaminopimelate decarboxylase; Provisional; Region: PRK11165 579405002610 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 579405002611 active site 579405002612 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 579405002613 substrate binding site [chemical binding]; other site 579405002614 catalytic residues [active] 579405002615 dimer interface [polypeptide binding]; other site 579405002616 Transcriptional regulators [Transcription]; Region: PurR; COG1609 579405002617 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 579405002618 DNA binding site [nucleotide binding] 579405002619 domain linker motif; other site 579405002620 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 579405002621 dimerization interface (closed form) [polypeptide binding]; other site 579405002622 ligand binding site [chemical binding]; other site 579405002623 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 579405002624 methionine cluster; other site 579405002625 active site 579405002626 phosphorylation site [posttranslational modification] 579405002627 metal binding site [ion binding]; metal-binding site 579405002628 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 579405002629 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 579405002630 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 579405002631 beta-galactosidase; Region: BGL; TIGR03356 579405002632 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 579405002633 active site 579405002634 P-loop; other site 579405002635 phosphorylation site [posttranslational modification] 579405002636 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 579405002637 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405002638 DNA-binding site [nucleotide binding]; DNA binding site 579405002639 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 579405002640 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405002641 Coenzyme A binding pocket [chemical binding]; other site 579405002642 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 579405002643 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 579405002644 DNA binding site [nucleotide binding] 579405002645 domain linker motif; other site 579405002646 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 579405002647 dimerization interface (closed form) [polypeptide binding]; other site 579405002648 ligand binding site [chemical binding]; other site 579405002649 transcriptional antiterminator BglG; Provisional; Region: PRK09772 579405002650 CAT RNA binding domain; Region: CAT_RBD; smart01061 579405002651 PRD domain; Region: PRD; pfam00874 579405002652 PRD domain; Region: PRD; pfam00874 579405002653 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 579405002654 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 579405002655 active site turn [active] 579405002656 phosphorylation site [posttranslational modification] 579405002657 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 579405002658 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; cl00162 579405002659 HPr interaction site; other site 579405002660 glycerol kinase (GK) interaction site [polypeptide binding]; other site 579405002661 active site 579405002662 phosphorylation site [posttranslational modification] 579405002663 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 579405002664 beta-galactosidase; Region: BGL; TIGR03356 579405002665 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 579405002666 beta-galactosidase; Region: BGL; TIGR03356 579405002667 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 579405002668 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 579405002669 putative acyl-acceptor binding pocket; other site 579405002670 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 579405002671 acyl-activating enzyme (AAE) consensus motif; other site 579405002672 AMP binding site [chemical binding]; other site 579405002673 active site 579405002674 CoA binding site [chemical binding]; other site 579405002675 lysophospholipid transporter LplT; Provisional; Region: PRK11195 579405002676 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 579405002677 putative substrate translocation pore; other site 579405002678 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 579405002679 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405002680 Coenzyme A binding pocket [chemical binding]; other site 579405002681 Predicted small secreted protein [Function unknown]; Region: COG5510 579405002682 HemN family oxidoreductase; Provisional; Region: PRK05660 579405002683 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 579405002684 FeS/SAM binding site; other site 579405002685 HemN C-terminal domain; Region: HemN_C; pfam06969 579405002686 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 579405002687 active site 579405002688 dimerization interface [polypeptide binding]; other site 579405002689 hypothetical protein; Validated; Region: PRK05090 579405002690 YGGT family; Region: YGGT; pfam02325 579405002691 YGGT family; Region: YGGT; pfam02325 579405002692 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 579405002693 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 579405002694 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 579405002695 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 579405002696 catalytic residue [active] 579405002697 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 579405002698 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 579405002699 Walker A motif; other site 579405002700 ATP binding site [chemical binding]; other site 579405002701 Walker B motif; other site 579405002702 cytosine deaminase; Provisional; Region: PRK09230 579405002703 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 579405002704 active site 579405002705 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 579405002706 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 579405002707 cytosine permease; Provisional; Region: codB; PRK11017 579405002708 Na binding site [ion binding]; other site 579405002709 EamA-like transporter family; Region: EamA; pfam00892 579405002710 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 579405002711 EamA-like transporter family; Region: EamA; pfam00892 579405002712 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 579405002713 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 579405002714 FeS/SAM binding site; other site 579405002715 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 579405002716 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 579405002717 Radical SAM superfamily; Region: Radical_SAM; pfam04055 579405002718 FeS/SAM binding site; other site 579405002719 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 579405002720 Major Facilitator Superfamily; Region: MFS_1; pfam07690 579405002721 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 579405002722 putative substrate translocation pore; other site 579405002723 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 579405002724 dimer interface [polypeptide binding]; other site 579405002725 ligand binding site [chemical binding]; other site 579405002726 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 579405002727 dimerization interface [polypeptide binding]; other site 579405002728 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405002729 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405002730 dimer interface [polypeptide binding]; other site 579405002731 putative CheW interface [polypeptide binding]; other site 579405002732 transcriptional repressor NsrR; Provisional; Region: PRK11014 579405002733 Rrf2 family protein; Region: rrf2_super; TIGR00738 579405002734 exoribonuclease R; Provisional; Region: PRK11642 579405002735 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 579405002736 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 579405002737 RNB domain; Region: RNB; pfam00773 579405002738 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 579405002739 RNA binding site [nucleotide binding]; other site 579405002740 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 579405002741 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 579405002742 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 579405002743 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 579405002744 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 579405002745 dimerization interface [polypeptide binding]; other site 579405002746 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405002747 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405002748 dimer interface [polypeptide binding]; other site 579405002749 putative CheW interface [polypeptide binding]; other site 579405002750 esterase; Provisional; Region: PRK10566 579405002751 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 579405002752 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 579405002753 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 579405002754 dimer interface [polypeptide binding]; other site 579405002755 ssDNA binding site [nucleotide binding]; other site 579405002756 tetramer (dimer of dimers) interface [polypeptide binding]; other site 579405002757 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 579405002758 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 579405002759 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 579405002760 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 579405002761 Protein of unknown function, DUF488; Region: DUF488; cl01246 579405002762 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 579405002763 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 579405002764 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 579405002765 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 579405002766 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 579405002767 Predicted amidohydrolase [General function prediction only]; Region: COG0388 579405002768 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 579405002769 active site 579405002770 catalytic triad [active] 579405002771 dimer interface [polypeptide binding]; other site 579405002772 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 579405002773 Predicted amidohydrolase [General function prediction only]; Region: COG0388 579405002774 active site 579405002775 catalytic triad [active] 579405002776 dimer interface [polypeptide binding]; other site 579405002777 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 579405002778 ANTAR domain; Region: ANTAR; pfam03861 579405002779 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 579405002780 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 579405002781 ligand binding site [chemical binding]; other site 579405002782 regulator interaction site; other site 579405002783 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 579405002784 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 579405002785 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 579405002786 Walker A/P-loop; other site 579405002787 ATP binding site [chemical binding]; other site 579405002788 Q-loop/lid; other site 579405002789 ABC transporter signature motif; other site 579405002790 Walker B; other site 579405002791 D-loop; other site 579405002792 H-loop/switch region; other site 579405002793 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 579405002794 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 579405002795 Walker A/P-loop; other site 579405002796 ATP binding site [chemical binding]; other site 579405002797 Q-loop/lid; other site 579405002798 ABC transporter signature motif; other site 579405002799 Walker B; other site 579405002800 D-loop; other site 579405002801 H-loop/switch region; other site 579405002802 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 579405002803 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 579405002804 TM-ABC transporter signature motif; other site 579405002805 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 579405002806 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 579405002807 TM-ABC transporter signature motif; other site 579405002808 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 579405002809 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_Amide_Urea_BP_like; cd06356 579405002810 putative ligand binding site [chemical binding]; other site 579405002811 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 579405002812 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 579405002813 Hemerythrin-like domain; Region: Hr-like; cd12108 579405002814 Fe binding site [ion binding]; other site 579405002815 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 579405002816 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 579405002817 active site 579405002818 metal binding site [ion binding]; metal-binding site 579405002819 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 579405002820 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 579405002821 active site 579405002822 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 579405002823 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 579405002824 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 579405002825 Domain of unknown function DUF21; Region: DUF21; pfam01595 579405002826 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 579405002827 Transporter associated domain; Region: CorC_HlyC; smart01091 579405002828 methionine sulfoxide reductase A; Provisional; Region: PRK00058 579405002829 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 579405002830 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 579405002831 Surface antigen; Region: Bac_surface_Ag; pfam01103 579405002832 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 579405002833 Family of unknown function (DUF490); Region: DUF490; pfam04357 579405002834 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 579405002835 putative active site pocket [active] 579405002836 dimerization interface [polypeptide binding]; other site 579405002837 putative catalytic residue [active] 579405002838 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 579405002839 dimer interface [polypeptide binding]; other site 579405002840 substrate binding site [chemical binding]; other site 579405002841 metal binding sites [ion binding]; metal-binding site 579405002842 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 579405002843 dimer interface [polypeptide binding]; other site 579405002844 ligand binding site [chemical binding]; other site 579405002845 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 579405002846 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 579405002847 dimerization interface [polypeptide binding]; other site 579405002848 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405002849 dimer interface [polypeptide binding]; other site 579405002850 putative CheW interface [polypeptide binding]; other site 579405002851 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 579405002852 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 579405002853 homooctamer interface [polypeptide binding]; other site 579405002854 active site 579405002855 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 579405002856 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 579405002857 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 579405002858 active site 579405002859 NTP binding site [chemical binding]; other site 579405002860 metal binding triad [ion binding]; metal-binding site 579405002861 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 579405002862 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 579405002863 Zn2+ binding site [ion binding]; other site 579405002864 Mg2+ binding site [ion binding]; other site 579405002865 SH3 domain-containing protein; Provisional; Region: PRK10884 579405002866 Bacterial SH3 domain homologues; Region: SH3b; smart00287 579405002867 Uncharacterized conserved protein [Function unknown]; Region: COG3025 579405002868 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 579405002869 putative active site [active] 579405002870 putative metal binding residues [ion binding]; other site 579405002871 signature motif; other site 579405002872 putative triphosphate binding site [ion binding]; other site 579405002873 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 579405002874 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 579405002875 metal binding triad; other site 579405002876 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 579405002877 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 579405002878 metal binding triad; other site 579405002879 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 579405002880 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 579405002881 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 579405002882 putative ribose interaction site [chemical binding]; other site 579405002883 putative ADP binding site [chemical binding]; other site 579405002884 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 579405002885 active site 579405002886 nucleotide binding site [chemical binding]; other site 579405002887 HIGH motif; other site 579405002888 KMSKS motif; other site 579405002889 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 579405002890 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 579405002891 nucleotide binding pocket [chemical binding]; other site 579405002892 K-X-D-G motif; other site 579405002893 catalytic site [active] 579405002894 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 579405002895 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 579405002896 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 579405002897 Dimer interface [polypeptide binding]; other site 579405002898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 579405002899 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 579405002900 PAS domain; Region: PAS_9; pfam13426 579405002901 putative active site [active] 579405002902 heme pocket [chemical binding]; other site 579405002903 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 579405002904 dimerization interface [polypeptide binding]; other site 579405002905 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405002906 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405002907 dimer interface [polypeptide binding]; other site 579405002908 putative CheW interface [polypeptide binding]; other site 579405002909 galactarate dehydratase; Region: galactar-dH20; TIGR03248 579405002910 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 579405002911 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 579405002912 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 579405002913 D-galactonate transporter; Region: 2A0114; TIGR00893 579405002914 putative substrate translocation pore; other site 579405002915 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 579405002916 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 579405002917 active site 579405002918 tetramer interface [polypeptide binding]; other site 579405002919 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 579405002920 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 579405002921 active site 579405002922 tetramer interface [polypeptide binding]; other site 579405002923 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 579405002924 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 579405002925 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 579405002926 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 579405002927 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 579405002928 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 579405002929 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 579405002930 dimerization interface [polypeptide binding]; other site 579405002931 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 579405002932 dimer interface [polypeptide binding]; other site 579405002933 phosphorylation site [posttranslational modification] 579405002934 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 579405002935 ATP binding site [chemical binding]; other site 579405002936 Mg2+ binding site [ion binding]; other site 579405002937 G-X-G motif; other site 579405002938 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 579405002939 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 579405002940 active site 579405002941 phosphorylation site [posttranslational modification] 579405002942 intermolecular recognition site; other site 579405002943 dimerization interface [polypeptide binding]; other site 579405002944 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 579405002945 putative binding surface; other site 579405002946 active site 579405002947 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 579405002948 TRAM domain; Region: TRAM; pfam01938 579405002949 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 579405002950 S-adenosylmethionine binding site [chemical binding]; other site 579405002951 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 579405002952 HD domain; Region: HD_4; pfam13328 579405002953 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 579405002954 synthetase active site [active] 579405002955 NTP binding site [chemical binding]; other site 579405002956 metal binding site [ion binding]; metal-binding site 579405002957 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 579405002958 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 579405002959 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 579405002960 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 579405002961 homodimer interface [polypeptide binding]; other site 579405002962 metal binding site [ion binding]; metal-binding site 579405002963 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 579405002964 homodimer interface [polypeptide binding]; other site 579405002965 active site 579405002966 putative chemical substrate binding site [chemical binding]; other site 579405002967 metal binding site [ion binding]; metal-binding site 579405002968 CTP synthetase; Validated; Region: pyrG; PRK05380 579405002969 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 579405002970 Catalytic site [active] 579405002971 active site 579405002972 UTP binding site [chemical binding]; other site 579405002973 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 579405002974 active site 579405002975 putative oxyanion hole; other site 579405002976 catalytic triad [active] 579405002977 enolase; Provisional; Region: eno; PRK00077 579405002978 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 579405002979 dimer interface [polypeptide binding]; other site 579405002980 metal binding site [ion binding]; metal-binding site 579405002981 substrate binding pocket [chemical binding]; other site 579405002982 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 579405002983 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 579405002984 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 579405002985 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 579405002986 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 579405002987 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 579405002988 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 579405002989 active site 579405002990 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 579405002991 Flavodoxin; Region: Flavodoxin_1; pfam00258 579405002992 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 579405002993 FAD binding pocket [chemical binding]; other site 579405002994 FAD binding motif [chemical binding]; other site 579405002995 catalytic residues [active] 579405002996 NAD binding pocket [chemical binding]; other site 579405002997 phosphate binding motif [ion binding]; other site 579405002998 beta-alpha-beta structure motif; other site 579405002999 sulfite reductase subunit beta; Provisional; Region: PRK13504 579405003000 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 579405003001 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 579405003002 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 579405003003 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 579405003004 Active Sites [active] 579405003005 siroheme synthase; Provisional; Region: cysG; PRK10637 579405003006 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 579405003007 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 579405003008 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 579405003009 active site 579405003010 SAM binding site [chemical binding]; other site 579405003011 homodimer interface [polypeptide binding]; other site 579405003012 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 579405003013 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 579405003014 Active Sites [active] 579405003015 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 579405003016 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 579405003017 CysD dimerization site [polypeptide binding]; other site 579405003018 G1 box; other site 579405003019 putative GEF interaction site [polypeptide binding]; other site 579405003020 GTP/Mg2+ binding site [chemical binding]; other site 579405003021 Switch I region; other site 579405003022 G2 box; other site 579405003023 G3 box; other site 579405003024 Switch II region; other site 579405003025 G4 box; other site 579405003026 G5 box; other site 579405003027 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 579405003028 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 579405003029 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 579405003030 ligand-binding site [chemical binding]; other site 579405003031 hypothetical protein; Provisional; Region: PRK10726 579405003032 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 579405003033 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 579405003034 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 579405003035 substrate binding site; other site 579405003036 dimer interface; other site 579405003037 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 579405003038 homotrimer interaction site [polypeptide binding]; other site 579405003039 zinc binding site [ion binding]; other site 579405003040 CDP-binding sites; other site 579405003041 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 579405003042 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 579405003043 Permutation of conserved domain; other site 579405003044 active site 579405003045 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 579405003046 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 579405003047 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 579405003048 S-adenosylmethionine binding site [chemical binding]; other site 579405003049 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 579405003050 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 579405003051 Peptidase family M23; Region: Peptidase_M23; pfam01551 579405003052 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 579405003053 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 579405003054 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 579405003055 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 579405003056 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 579405003057 DNA binding residues [nucleotide binding] 579405003058 prolyl-tRNA synthetase; Provisional; Region: PRK09194 579405003059 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 579405003060 dimer interface [polypeptide binding]; other site 579405003061 motif 1; other site 579405003062 active site 579405003063 motif 2; other site 579405003064 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 579405003065 putative deacylase active site [active] 579405003066 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 579405003067 active site 579405003068 motif 3; other site 579405003069 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 579405003070 anticodon binding site; other site 579405003071 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 579405003072 homodimer interaction site [polypeptide binding]; other site 579405003073 cofactor binding site; other site 579405003074 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 579405003075 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 579405003076 lipoprotein, YaeC family; Region: TIGR00363 579405003077 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 579405003078 dimer interface [polypeptide binding]; other site 579405003079 conserved gate region; other site 579405003080 ABC-ATPase subunit interface; other site 579405003081 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 579405003082 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 579405003083 Walker A/P-loop; other site 579405003084 ATP binding site [chemical binding]; other site 579405003085 Q-loop/lid; other site 579405003086 ABC transporter signature motif; other site 579405003087 Walker B; other site 579405003088 D-loop; other site 579405003089 H-loop/switch region; other site 579405003090 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 579405003091 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 579405003092 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 579405003093 active site 579405003094 motif I; other site 579405003095 motif II; other site 579405003096 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 579405003097 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 579405003098 putative substrate translocation pore; other site 579405003099 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 579405003100 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 579405003101 domain interface [polypeptide binding]; other site 579405003102 putative active site [active] 579405003103 catalytic site [active] 579405003104 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 579405003105 domain interface [polypeptide binding]; other site 579405003106 putative active site [active] 579405003107 catalytic site [active] 579405003108 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 579405003109 CoA binding domain; Region: CoA_binding_2; pfam13380 579405003110 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 579405003111 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 579405003112 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 579405003113 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405003114 Coenzyme A binding pocket [chemical binding]; other site 579405003115 Uncharacterized conserved protein [Function unknown]; Region: COG3148 579405003116 thioredoxin 2; Provisional; Region: PRK10996 579405003117 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 579405003118 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 579405003119 catalytic residues [active] 579405003120 putative methyltransferase; Provisional; Region: PRK10864 579405003121 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 579405003122 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 579405003123 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 579405003124 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 579405003125 putative substrate translocation pore; other site 579405003126 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 579405003127 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 579405003128 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 579405003129 HlyD family secretion protein; Region: HlyD_3; pfam13437 579405003130 transcriptional repressor MprA; Provisional; Region: PRK10870 579405003131 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 579405003132 putative L-valine exporter; Provisional; Region: PRK10408 579405003133 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 579405003134 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 579405003135 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 579405003136 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 579405003137 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 579405003138 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 579405003139 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 579405003140 dimer interface [polypeptide binding]; other site 579405003141 conserved gate region; other site 579405003142 putative PBP binding loops; other site 579405003143 ABC-ATPase subunit interface; other site 579405003144 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 579405003145 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 579405003146 Walker A/P-loop; other site 579405003147 ATP binding site [chemical binding]; other site 579405003148 Q-loop/lid; other site 579405003149 ABC transporter signature motif; other site 579405003150 Walker B; other site 579405003151 D-loop; other site 579405003152 H-loop/switch region; other site 579405003153 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 579405003154 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 579405003155 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 579405003156 Na binding site [ion binding]; other site 579405003157 putative substrate binding site [chemical binding]; other site 579405003158 Transcriptional regulators [Transcription]; Region: GntR; COG1802 579405003159 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405003160 DNA-binding site [nucleotide binding]; DNA binding site 579405003161 FCD domain; Region: FCD; pfam07729 579405003162 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 579405003163 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 579405003164 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 579405003165 active site 579405003166 catalytic site [active] 579405003167 tetramer interface [polypeptide binding]; other site 579405003168 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 579405003169 SnoaL-like domain; Region: SnoaL_3; pfam13474 579405003170 amidase; Provisional; Region: PRK09201 579405003171 Amidase; Region: Amidase; cl11426 579405003172 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 579405003173 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 579405003174 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 579405003175 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 579405003176 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 579405003177 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 579405003178 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 579405003179 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 579405003180 substrate binding pocket [chemical binding]; other site 579405003181 membrane-bound complex binding site; other site 579405003182 hinge residues; other site 579405003183 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 579405003184 dimer interface [polypeptide binding]; other site 579405003185 conserved gate region; other site 579405003186 putative PBP binding loops; other site 579405003187 ABC-ATPase subunit interface; other site 579405003188 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 579405003189 ABC-ATPase subunit interface; other site 579405003190 putative PBP binding loops; other site 579405003191 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 579405003192 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 579405003193 Walker A/P-loop; other site 579405003194 ATP binding site [chemical binding]; other site 579405003195 Q-loop/lid; other site 579405003196 ABC transporter signature motif; other site 579405003197 Walker B; other site 579405003198 D-loop; other site 579405003199 H-loop/switch region; other site 579405003200 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 579405003201 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 579405003202 catalytic residue [active] 579405003203 allantoate amidohydrolase; Reviewed; Region: PRK09290 579405003204 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 579405003205 active site 579405003206 metal binding site [ion binding]; metal-binding site 579405003207 dimer interface [polypeptide binding]; other site 579405003208 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 579405003209 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 579405003210 Winged helix-turn helix; Region: HTH_29; pfam13551 579405003211 Helix-turn-helix domain; Region: HTH_28; pfam13518 579405003212 Homeodomain-like domain; Region: HTH_32; pfam13565 579405003213 Integrase core domain; Region: rve; pfam00665 579405003214 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 579405003215 Integrase core domain; Region: rve_3; pfam13683 579405003216 C-N hydrolase family amidase; Provisional; Region: PRK10438 579405003217 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 579405003218 putative active site [active] 579405003219 catalytic triad [active] 579405003220 dimer interface [polypeptide binding]; other site 579405003221 multimer interface [polypeptide binding]; other site 579405003222 methionine aminotransferase; Validated; Region: PRK09082 579405003223 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 579405003224 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405003225 homodimer interface [polypeptide binding]; other site 579405003226 catalytic residue [active] 579405003227 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 579405003228 intersubunit interface [polypeptide binding]; other site 579405003229 active site 579405003230 Zn2+ binding site [ion binding]; other site 579405003231 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 579405003232 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 579405003233 Cupin domain; Region: Cupin_2; cl17218 579405003234 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 579405003235 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 579405003236 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 579405003237 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 579405003238 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 579405003239 active site 579405003240 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 579405003241 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 579405003242 dimer interface [polypeptide binding]; other site 579405003243 active site 579405003244 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 579405003245 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 579405003246 putative active site [active] 579405003247 putative dimer interface [polypeptide binding]; other site 579405003248 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 579405003249 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 579405003250 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 579405003251 active site 579405003252 DNA polymerase IV; Validated; Region: PRK02406 579405003253 DNA binding site [nucleotide binding] 579405003254 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 579405003255 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 579405003256 metal binding site [ion binding]; metal-binding site 579405003257 dimer interface [polypeptide binding]; other site 579405003258 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 579405003259 active site 579405003260 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 579405003261 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 579405003262 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 579405003263 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 579405003264 metal binding site [ion binding]; metal-binding site 579405003265 active site 579405003266 I-site; other site 579405003267 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 579405003268 gamma-glutamyl kinase; Provisional; Region: PRK05429 579405003269 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 579405003270 nucleotide binding site [chemical binding]; other site 579405003271 homotetrameric interface [polypeptide binding]; other site 579405003272 putative phosphate binding site [ion binding]; other site 579405003273 putative allosteric binding site; other site 579405003274 PUA domain; Region: PUA; pfam01472 579405003275 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 579405003276 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 579405003277 putative catalytic cysteine [active] 579405003278 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 579405003279 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 579405003280 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 579405003281 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 579405003282 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 579405003283 acyl-activating enzyme (AAE) consensus motif; other site 579405003284 AMP binding site [chemical binding]; other site 579405003285 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 579405003286 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 579405003287 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 579405003288 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 579405003289 Transcriptional regulators [Transcription]; Region: FadR; COG2186 579405003290 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405003291 DNA-binding site [nucleotide binding]; DNA binding site 579405003292 FCD domain; Region: FCD; pfam07729 579405003293 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 579405003294 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 579405003295 putative NAD(P) binding site [chemical binding]; other site 579405003296 catalytic Zn binding site [ion binding]; other site 579405003297 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 579405003298 D-galactonate transporter; Region: 2A0114; TIGR00893 579405003299 putative substrate translocation pore; other site 579405003300 gluconate 5-dehydrogenase; Provisional; Region: PRK08085 579405003301 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 579405003302 NADP binding site [chemical binding]; other site 579405003303 homodimer interface [polypeptide binding]; other site 579405003304 active site 579405003305 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 579405003306 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 579405003307 metal binding site [ion binding]; metal-binding site 579405003308 substrate binding pocket [chemical binding]; other site 579405003309 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 579405003310 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 579405003311 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 579405003312 active site 579405003313 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 579405003314 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 579405003315 metal binding site [ion binding]; metal-binding site 579405003316 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 579405003317 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405003318 Walker A/P-loop; other site 579405003319 ATP binding site [chemical binding]; other site 579405003320 Q-loop/lid; other site 579405003321 ABC transporter signature motif; other site 579405003322 Walker B; other site 579405003323 D-loop; other site 579405003324 H-loop/switch region; other site 579405003325 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405003326 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405003327 Walker A/P-loop; other site 579405003328 ATP binding site [chemical binding]; other site 579405003329 Q-loop/lid; other site 579405003330 ABC transporter signature motif; other site 579405003331 Walker B; other site 579405003332 D-loop; other site 579405003333 H-loop/switch region; other site 579405003334 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405003335 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 579405003336 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 579405003337 dimer interface [polypeptide binding]; other site 579405003338 conserved gate region; other site 579405003339 putative PBP binding loops; other site 579405003340 ABC-ATPase subunit interface; other site 579405003341 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 579405003342 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 579405003343 dimer interface [polypeptide binding]; other site 579405003344 conserved gate region; other site 579405003345 putative PBP binding loops; other site 579405003346 ABC-ATPase subunit interface; other site 579405003347 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 579405003348 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 579405003349 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 579405003350 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 579405003351 metal binding site [ion binding]; metal-binding site 579405003352 dimer interface [polypeptide binding]; other site 579405003353 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 579405003354 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405003355 DNA-binding site [nucleotide binding]; DNA binding site 579405003356 UTRA domain; Region: UTRA; pfam07702 579405003357 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 579405003358 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 579405003359 GAF domain; Region: GAF; pfam01590 579405003360 Histidine kinase; Region: His_kinase; pfam06580 579405003361 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 579405003362 ATP binding site [chemical binding]; other site 579405003363 Mg2+ binding site [ion binding]; other site 579405003364 G-X-G motif; other site 579405003365 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 579405003366 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 579405003367 active site 579405003368 phosphorylation site [posttranslational modification] 579405003369 intermolecular recognition site; other site 579405003370 dimerization interface [polypeptide binding]; other site 579405003371 LytTr DNA-binding domain; Region: LytTR; pfam04397 579405003372 carbon starvation protein A; Provisional; Region: PRK15015 579405003373 Carbon starvation protein CstA; Region: CstA; pfam02554 579405003374 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 579405003375 Uncharacterized small protein [Function unknown]; Region: COG2879 579405003376 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 579405003377 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 579405003378 P-loop, Walker A motif; other site 579405003379 Base recognition motif; other site 579405003380 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 579405003381 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 579405003382 Major Facilitator Superfamily; Region: MFS_1; pfam07690 579405003383 putative substrate translocation pore; other site 579405003384 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 579405003385 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 579405003386 TMP-binding site; other site 579405003387 ATP-binding site [chemical binding]; other site 579405003388 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 579405003389 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 579405003390 active site 579405003391 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 579405003392 nudix motif; other site 579405003393 polyol permease family; Region: 2A0118; TIGR00897 579405003394 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 579405003395 putative substrate translocation pore; other site 579405003396 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 579405003397 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 579405003398 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 579405003399 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 579405003400 mannonate dehydratase; Provisional; Region: PRK03906 579405003401 mannonate dehydratase; Region: uxuA; TIGR00695 579405003402 D-mannonate oxidoreductase; Provisional; Region: PRK15037 579405003403 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 579405003404 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 579405003405 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 579405003406 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405003407 DNA-binding site [nucleotide binding]; DNA binding site 579405003408 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 579405003409 Peptidase family C69; Region: Peptidase_C69; cl17793 579405003410 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 579405003411 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 579405003412 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 579405003413 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 579405003414 TM-ABC transporter signature motif; other site 579405003415 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 579405003416 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 579405003417 TM-ABC transporter signature motif; other site 579405003418 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 579405003419 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 579405003420 Walker A/P-loop; other site 579405003421 ATP binding site [chemical binding]; other site 579405003422 Q-loop/lid; other site 579405003423 ABC transporter signature motif; other site 579405003424 Walker B; other site 579405003425 D-loop; other site 579405003426 H-loop/switch region; other site 579405003427 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 579405003428 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 579405003429 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 579405003430 putative ligand binding site [chemical binding]; other site 579405003431 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 579405003432 substrate binding site [chemical binding]; other site 579405003433 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 579405003434 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405003435 EamA-like transporter family; Region: EamA; pfam00892 579405003436 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 579405003437 EamA-like transporter family; Region: EamA; pfam00892 579405003438 WYL domain; Region: WYL; pfam13280 579405003439 acetoin reductase; Validated; Region: PRK08643 579405003440 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 579405003441 NAD binding site [chemical binding]; other site 579405003442 homotetramer interface [polypeptide binding]; other site 579405003443 homodimer interface [polypeptide binding]; other site 579405003444 active site 579405003445 substrate binding site [chemical binding]; other site 579405003446 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 579405003447 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 579405003448 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 579405003449 putative hydrophobic ligand binding site [chemical binding]; other site 579405003450 hypothetical protein; Validated; Region: PRK03661 579405003451 recombinase A; Provisional; Region: recA; PRK09354 579405003452 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 579405003453 hexamer interface [polypeptide binding]; other site 579405003454 Walker A motif; other site 579405003455 ATP binding site [chemical binding]; other site 579405003456 Walker B motif; other site 579405003457 recombination regulator RecX; Reviewed; Region: recX; PRK00117 579405003458 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 579405003459 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 579405003460 motif 1; other site 579405003461 active site 579405003462 motif 2; other site 579405003463 motif 3; other site 579405003464 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 579405003465 DHHA1 domain; Region: DHHA1; pfam02272 579405003466 carbon storage regulator; Provisional; Region: PRK01712 579405003467 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 579405003468 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 579405003469 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 579405003470 motif II; other site 579405003471 Predicted membrane protein [Function unknown]; Region: COG1238 579405003472 glutamate--cysteine ligase; Provisional; Region: PRK02107 579405003473 S-ribosylhomocysteinase; Provisional; Region: PRK02260 579405003474 acyl-CoA thioesterase II; Provisional; Region: PRK10526 579405003475 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 579405003476 active site 579405003477 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 579405003478 catalytic triad [active] 579405003479 dimer interface [polypeptide binding]; other site 579405003480 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 579405003481 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 579405003482 DNA binding site [nucleotide binding] 579405003483 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 579405003484 active site 579405003485 gene expression modulator; Provisional; Region: PRK10945 579405003486 Hha toxicity attenuator; Provisional; Region: PRK10667 579405003487 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 579405003488 Protein export membrane protein; Region: SecD_SecF; cl14618 579405003489 Protein export membrane protein; Region: SecD_SecF; cl14618 579405003490 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 579405003491 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 579405003492 HlyD family secretion protein; Region: HlyD_3; pfam13437 579405003493 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 579405003494 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 579405003495 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 579405003496 hypothetical protein; Provisional; Region: PRK11281 579405003497 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 579405003498 Mechanosensitive ion channel; Region: MS_channel; pfam00924 579405003499 hypothetical protein; Provisional; Region: PRK11038 579405003500 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 579405003501 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 579405003502 active site 579405003503 dinuclear metal binding site [ion binding]; other site 579405003504 dimerization interface [polypeptide binding]; other site 579405003505 hypothetical protein; Provisional; Region: PRK10527 579405003506 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 579405003507 active site 579405003508 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 579405003509 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 579405003510 Walker A motif; other site 579405003511 ATP binding site [chemical binding]; other site 579405003512 Walker B motif; other site 579405003513 arginine finger; other site 579405003514 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 579405003515 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 579405003516 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 579405003517 hypothetical protein; Validated; Region: PRK00153 579405003518 recombination protein RecR; Reviewed; Region: recR; PRK00076 579405003519 RecR protein; Region: RecR; pfam02132 579405003520 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 579405003521 putative active site [active] 579405003522 putative metal-binding site [ion binding]; other site 579405003523 tetramer interface [polypeptide binding]; other site 579405003524 heat shock protein 90; Provisional; Region: PRK05218 579405003525 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 579405003526 ATP binding site [chemical binding]; other site 579405003527 Mg2+ binding site [ion binding]; other site 579405003528 G-X-G motif; other site 579405003529 adenylate kinase; Reviewed; Region: adk; PRK00279 579405003530 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 579405003531 AMP-binding site [chemical binding]; other site 579405003532 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 579405003533 ferrochelatase; Reviewed; Region: hemH; PRK00035 579405003534 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 579405003535 C-terminal domain interface [polypeptide binding]; other site 579405003536 active site 579405003537 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 579405003538 active site 579405003539 N-terminal domain interface [polypeptide binding]; other site 579405003540 putative cation:proton antiport protein; Provisional; Region: PRK10669 579405003541 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 579405003542 TrkA-N domain; Region: TrkA_N; pfam02254 579405003543 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 579405003544 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 579405003545 active site 579405003546 metal binding site [ion binding]; metal-binding site 579405003547 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 579405003548 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 579405003549 HAMP domain; Region: HAMP; pfam00672 579405003550 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405003551 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405003552 dimer interface [polypeptide binding]; other site 579405003553 putative CheW interface [polypeptide binding]; other site 579405003554 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 579405003555 putative deacylase active site [active] 579405003556 TraB family; Region: TraB; cl12050 579405003557 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 579405003558 metal-binding site [ion binding] 579405003559 copper exporting ATPase; Provisional; Region: copA; PRK10671 579405003560 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 579405003561 metal-binding site [ion binding] 579405003562 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 579405003563 metal-binding site [ion binding] 579405003564 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 579405003565 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 579405003566 motif II; other site 579405003567 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 579405003568 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 579405003569 DNA binding residues [nucleotide binding] 579405003570 dimer interface [polypeptide binding]; other site 579405003571 copper binding site [ion binding]; other site 579405003572 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 579405003573 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 579405003574 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 579405003575 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 579405003576 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 579405003577 catalytic loop [active] 579405003578 iron binding site [ion binding]; other site 579405003579 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 579405003580 dimer interface [polypeptide binding]; other site 579405003581 putative radical transfer pathway; other site 579405003582 diiron center [ion binding]; other site 579405003583 tyrosyl radical; other site 579405003584 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 579405003585 ATP cone domain; Region: ATP-cone; pfam03477 579405003586 Class I ribonucleotide reductase; Region: RNR_I; cd01679 579405003587 active site 579405003588 dimer interface [polypeptide binding]; other site 579405003589 catalytic residues [active] 579405003590 effector binding site; other site 579405003591 R2 peptide binding site; other site 579405003592 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 579405003593 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 579405003594 S-adenosylmethionine binding site [chemical binding]; other site 579405003595 DNA gyrase subunit A; Validated; Region: PRK05560 579405003596 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 579405003597 CAP-like domain; other site 579405003598 active site 579405003599 primary dimer interface [polypeptide binding]; other site 579405003600 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 579405003601 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 579405003602 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 579405003603 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 579405003604 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 579405003605 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 579405003606 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 579405003607 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 579405003608 dimer interface [polypeptide binding]; other site 579405003609 phosphorylation site [posttranslational modification] 579405003610 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 579405003611 ATP binding site [chemical binding]; other site 579405003612 Mg2+ binding site [ion binding]; other site 579405003613 G-X-G motif; other site 579405003614 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 579405003615 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 579405003616 active site 579405003617 phosphorylation site [posttranslational modification] 579405003618 intermolecular recognition site; other site 579405003619 dimerization interface [polypeptide binding]; other site 579405003620 transcriptional regulator RcsB; Provisional; Region: PRK10840 579405003621 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 579405003622 active site 579405003623 phosphorylation site [posttranslational modification] 579405003624 intermolecular recognition site; other site 579405003625 dimerization interface [polypeptide binding]; other site 579405003626 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 579405003627 DNA binding residues [nucleotide binding] 579405003628 dimerization interface [polypeptide binding]; other site 579405003629 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 579405003630 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 579405003631 dimer interface [polypeptide binding]; other site 579405003632 phosphorylation site [posttranslational modification] 579405003633 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 579405003634 ATP binding site [chemical binding]; other site 579405003635 G-X-G motif; other site 579405003636 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 579405003637 putative binding surface; other site 579405003638 active site 579405003639 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 579405003640 chorismate binding enzyme; Region: Chorismate_bind; cl10555 579405003641 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 579405003642 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 579405003643 dimer interface [polypeptide binding]; other site 579405003644 tetramer interface [polypeptide binding]; other site 579405003645 PYR/PP interface [polypeptide binding]; other site 579405003646 TPP binding site [chemical binding]; other site 579405003647 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 579405003648 TPP-binding site; other site 579405003649 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 579405003650 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 579405003651 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 579405003652 substrate binding site [chemical binding]; other site 579405003653 oxyanion hole (OAH) forming residues; other site 579405003654 trimer interface [polypeptide binding]; other site 579405003655 O-succinylbenzoate synthase; Provisional; Region: PRK05105 579405003656 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 579405003657 active site 579405003658 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 579405003659 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 579405003660 acyl-activating enzyme (AAE) consensus motif; other site 579405003661 putative AMP binding site [chemical binding]; other site 579405003662 putative active site [active] 579405003663 putative CoA binding site [chemical binding]; other site 579405003664 YfaZ precursor; Region: YfaZ; pfam07437 579405003665 hypothetical protein; Provisional; Region: PRK03673 579405003666 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 579405003667 putative MPT binding site; other site 579405003668 Competence-damaged protein; Region: CinA; cl00666 579405003669 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 579405003670 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 579405003671 oxidoreductase; Provisional; Region: PRK08017 579405003672 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 579405003673 NADP binding site [chemical binding]; other site 579405003674 active site 579405003675 steroid binding site; other site 579405003676 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 579405003677 active site 579405003678 catalytic triad [active] 579405003679 oxyanion hole [active] 579405003680 switch loop; other site 579405003681 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 579405003682 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 579405003683 Walker A/P-loop; other site 579405003684 ATP binding site [chemical binding]; other site 579405003685 Q-loop/lid; other site 579405003686 ABC transporter signature motif; other site 579405003687 Walker B; other site 579405003688 D-loop; other site 579405003689 H-loop/switch region; other site 579405003690 FtsX-like permease family; Region: FtsX; pfam02687 579405003691 FtsX-like permease family; Region: FtsX; pfam02687 579405003692 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 579405003693 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 579405003694 N-terminal plug; other site 579405003695 ligand-binding site [chemical binding]; other site 579405003696 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 579405003697 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 579405003698 putative ligand binding residues [chemical binding]; other site 579405003699 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 579405003700 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 579405003701 TM-ABC transporter signature motif; other site 579405003702 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 579405003703 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 579405003704 Walker A/P-loop; other site 579405003705 ATP binding site [chemical binding]; other site 579405003706 Q-loop/lid; other site 579405003707 ABC transporter signature motif; other site 579405003708 Walker B; other site 579405003709 D-loop; other site 579405003710 H-loop/switch region; other site 579405003711 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 579405003712 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 579405003713 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 579405003714 ligand binding site [chemical binding]; other site 579405003715 calcium binding site [ion binding]; other site 579405003716 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 579405003717 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 579405003718 DNA binding site [nucleotide binding] 579405003719 domain linker motif; other site 579405003720 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 579405003721 dimerization interface (closed form) [polypeptide binding]; other site 579405003722 ligand binding site [chemical binding]; other site 579405003723 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 579405003724 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 579405003725 active site 579405003726 substrate binding site [chemical binding]; other site 579405003727 cosubstrate binding site; other site 579405003728 catalytic site [active] 579405003729 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 579405003730 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 579405003731 dimerization interface [polypeptide binding]; other site 579405003732 putative ATP binding site [chemical binding]; other site 579405003733 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 579405003734 active site 579405003735 uracil transporter; Provisional; Region: PRK10720 579405003736 DNA replication initiation factor; Provisional; Region: PRK08084 579405003737 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 579405003738 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 579405003739 ArsC family; Region: ArsC; pfam03960 579405003740 catalytic residues [active] 579405003741 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 579405003742 Peptidase family M48; Region: Peptidase_M48; pfam01435 579405003743 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 579405003744 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 579405003745 catalytic triad [active] 579405003746 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 579405003747 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 579405003748 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 579405003749 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 579405003750 dihydrodipicolinate synthase; Region: dapA; TIGR00674 579405003751 dimer interface [polypeptide binding]; other site 579405003752 active site 579405003753 catalytic residue [active] 579405003754 lipoprotein; Provisional; Region: PRK11679 579405003755 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 579405003756 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 579405003757 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 579405003758 ATP binding site [chemical binding]; other site 579405003759 active site 579405003760 substrate binding site [chemical binding]; other site 579405003761 Predicted membrane protein [Function unknown]; Region: COG2707 579405003762 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 579405003763 Helicase; Region: Helicase_RecD; pfam05127 579405003764 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 579405003765 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 579405003766 putative hydrolase; Provisional; Region: PRK11460 579405003767 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 579405003768 Uncharacterized protein family (UPF0370); Region: UPF0370; pfam13980 579405003769 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 579405003770 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 579405003771 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 579405003772 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 579405003773 metal binding site [ion binding]; metal-binding site 579405003774 dimer interface [polypeptide binding]; other site 579405003775 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 579405003776 ArsC family; Region: ArsC; pfam03960 579405003777 putative catalytic residues [active] 579405003778 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 579405003779 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 579405003780 DNA-binding site [nucleotide binding]; DNA binding site 579405003781 RNA-binding motif; other site 579405003782 chromosome condensation membrane protein; Provisional; Region: PRK14196 579405003783 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 579405003784 lipoyl synthase; Provisional; Region: PRK05481 579405003785 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 579405003786 FeS/SAM binding site; other site 579405003787 lipoate-protein ligase B; Provisional; Region: PRK14342 579405003788 hypothetical protein; Provisional; Region: PRK04998 579405003789 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 579405003790 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 579405003791 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 579405003792 rare lipoprotein A; Provisional; Region: PRK10672 579405003793 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 579405003794 Sporulation related domain; Region: SPOR; pfam05036 579405003795 cell wall shape-determining protein; Provisional; Region: PRK10794 579405003796 penicillin-binding protein 2; Provisional; Region: PRK10795 579405003797 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 579405003798 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 579405003799 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 579405003800 ribosome-associated protein; Provisional; Region: PRK11538 579405003801 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 579405003802 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 579405003803 active site 579405003804 (T/H)XGH motif; other site 579405003805 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 579405003806 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 579405003807 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 579405003808 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 579405003809 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 579405003810 HIGH motif; other site 579405003811 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 579405003812 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 579405003813 active site 579405003814 KMSKS motif; other site 579405003815 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 579405003816 tRNA binding surface [nucleotide binding]; other site 579405003817 hypothetical protein; Provisional; Region: PRK11032 579405003818 Predicted integral membrane metal-binding protein (DUF2296); Region: DUF2296; pfam10058 579405003819 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 579405003820 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 579405003821 Walker A/P-loop; other site 579405003822 ATP binding site [chemical binding]; other site 579405003823 Q-loop/lid; other site 579405003824 ABC transporter signature motif; other site 579405003825 Walker B; other site 579405003826 D-loop; other site 579405003827 H-loop/switch region; other site 579405003828 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 579405003829 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 579405003830 dimer interface [polypeptide binding]; other site 579405003831 conserved gate region; other site 579405003832 putative PBP binding loops; other site 579405003833 ABC-ATPase subunit interface; other site 579405003834 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 579405003835 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 579405003836 dimer interface [polypeptide binding]; other site 579405003837 conserved gate region; other site 579405003838 putative PBP binding loops; other site 579405003839 ABC-ATPase subunit interface; other site 579405003840 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 579405003841 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 579405003842 substrate binding pocket [chemical binding]; other site 579405003843 membrane-bound complex binding site; other site 579405003844 hinge residues; other site 579405003845 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 579405003846 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 579405003847 putative active site [active] 579405003848 catalytic triad [active] 579405003849 putative dimer interface [polypeptide binding]; other site 579405003850 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 579405003851 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 579405003852 Transporter associated domain; Region: CorC_HlyC; smart01091 579405003853 metal-binding heat shock protein; Provisional; Region: PRK00016 579405003854 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 579405003855 PhoH-like protein; Region: PhoH; pfam02562 579405003856 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 579405003857 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 579405003858 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 579405003859 FeS/SAM binding site; other site 579405003860 TRAM domain; Region: TRAM; pfam01938 579405003861 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 579405003862 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 579405003863 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 579405003864 asparagine synthetase B; Provisional; Region: asnB; PRK09431 579405003865 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 579405003866 active site 579405003867 dimer interface [polypeptide binding]; other site 579405003868 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 579405003869 Ligand Binding Site [chemical binding]; other site 579405003870 Molecular Tunnel; other site 579405003871 MarR family; Region: MarR; pfam01047 579405003872 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 579405003873 ROK family; Region: ROK; pfam00480 579405003874 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 579405003875 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 579405003876 active site 579405003877 dimer interface [polypeptide binding]; other site 579405003878 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 579405003879 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 579405003880 active site 579405003881 trimer interface [polypeptide binding]; other site 579405003882 allosteric site; other site 579405003883 active site lid [active] 579405003884 hexamer (dimer of trimers) interface [polypeptide binding]; other site 579405003885 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 579405003886 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 579405003887 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 579405003888 active site turn [active] 579405003889 phosphorylation site [posttranslational modification] 579405003890 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 579405003891 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 579405003892 active site 579405003893 HIGH motif; other site 579405003894 nucleotide binding site [chemical binding]; other site 579405003895 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 579405003896 KMSKS motif; other site 579405003897 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 579405003898 ferric uptake regulator; Provisional; Region: fur; PRK09462 579405003899 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 579405003900 metal binding site 2 [ion binding]; metal-binding site 579405003901 putative DNA binding helix; other site 579405003902 metal binding site 1 [ion binding]; metal-binding site 579405003903 dimer interface [polypeptide binding]; other site 579405003904 structural Zn2+ binding site [ion binding]; other site 579405003905 flavodoxin FldA; Validated; Region: PRK09267 579405003906 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 579405003907 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405003908 dimer interface [polypeptide binding]; other site 579405003909 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 579405003910 putative CheW interface [polypeptide binding]; other site 579405003911 LexA regulated protein; Provisional; Region: PRK11675 579405003912 acyl-CoA esterase; Provisional; Region: PRK10673 579405003913 PGAP1-like protein; Region: PGAP1; pfam07819 579405003914 replication initiation regulator SeqA; Provisional; Region: PRK11187 579405003915 phosphoglucomutase; Validated; Region: PRK07564 579405003916 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 579405003917 active site 579405003918 substrate binding site [chemical binding]; other site 579405003919 metal binding site [ion binding]; metal-binding site 579405003920 Predicted membrane protein [Function unknown]; Region: COG2510 579405003921 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 579405003922 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 579405003923 active site 579405003924 phosphorylation site [posttranslational modification] 579405003925 intermolecular recognition site; other site 579405003926 dimerization interface [polypeptide binding]; other site 579405003927 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 579405003928 DNA binding site [nucleotide binding] 579405003929 sensor protein KdpD; Provisional; Region: PRK10490 579405003930 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 579405003931 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 579405003932 Ligand Binding Site [chemical binding]; other site 579405003933 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 579405003934 GAF domain; Region: GAF_3; pfam13492 579405003935 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 579405003936 dimer interface [polypeptide binding]; other site 579405003937 phosphorylation site [posttranslational modification] 579405003938 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 579405003939 ATP binding site [chemical binding]; other site 579405003940 Mg2+ binding site [ion binding]; other site 579405003941 G-X-G motif; other site 579405003942 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 579405003943 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 579405003944 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 579405003945 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 579405003946 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 579405003947 Protein of unknown function (DUF523); Region: DUF523; pfam04463 579405003948 Uncharacterized conserved protein [Function unknown]; Region: COG3272 579405003949 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 579405003950 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 579405003951 DNA photolyase; Region: DNA_photolyase; pfam00875 579405003952 Uncharacterized conserved protein [Function unknown]; Region: COG0327 579405003953 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 579405003954 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 579405003955 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 579405003956 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 579405003957 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 579405003958 putative active site [active] 579405003959 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 579405003960 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 579405003961 dimer interface [polypeptide binding]; other site 579405003962 active site 579405003963 citrylCoA binding site [chemical binding]; other site 579405003964 NADH binding [chemical binding]; other site 579405003965 cationic pore residues; other site 579405003966 oxalacetate/citrate binding site [chemical binding]; other site 579405003967 coenzyme A binding site [chemical binding]; other site 579405003968 catalytic triad [active] 579405003969 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 579405003970 Iron-sulfur protein interface; other site 579405003971 proximal quinone binding site [chemical binding]; other site 579405003972 SdhD (CybS) interface [polypeptide binding]; other site 579405003973 proximal heme binding site [chemical binding]; other site 579405003974 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 579405003975 SdhC subunit interface [polypeptide binding]; other site 579405003976 proximal heme binding site [chemical binding]; other site 579405003977 cardiolipin binding site; other site 579405003978 Iron-sulfur protein interface; other site 579405003979 proximal quinone binding site [chemical binding]; other site 579405003980 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 579405003981 L-aspartate oxidase; Provisional; Region: PRK06175 579405003982 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 579405003983 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 579405003984 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 579405003985 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 579405003986 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 579405003987 TPP-binding site [chemical binding]; other site 579405003988 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 579405003989 dimer interface [polypeptide binding]; other site 579405003990 PYR/PP interface [polypeptide binding]; other site 579405003991 TPP binding site [chemical binding]; other site 579405003992 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 579405003993 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 579405003994 E3 interaction surface; other site 579405003995 lipoyl attachment site [posttranslational modification]; other site 579405003996 e3 binding domain; Region: E3_binding; pfam02817 579405003997 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 579405003998 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 579405003999 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 579405004000 CoA-ligase; Region: Ligase_CoA; pfam00549 579405004001 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 579405004002 CoA binding domain; Region: CoA_binding; smart00881 579405004003 CoA-ligase; Region: Ligase_CoA; pfam00549 579405004004 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 579405004005 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 579405004006 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 579405004007 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 579405004008 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 579405004009 hypothetical protein; Provisional; Region: PRK10588 579405004010 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 579405004011 active site 579405004012 colicin uptake protein TolQ; Provisional; Region: PRK10801 579405004013 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 579405004014 colicin uptake protein TolR; Provisional; Region: PRK11024 579405004015 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 579405004016 TolA C-terminal; Region: TolA; pfam06519 579405004017 translocation protein TolB; Provisional; Region: tolB; PRK03629 579405004018 TolB amino-terminal domain; Region: TolB_N; pfam04052 579405004019 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 579405004020 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 579405004021 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 579405004022 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 579405004023 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 579405004024 ligand binding site [chemical binding]; other site 579405004025 tol-pal system protein YbgF; Provisional; Region: PRK10803 579405004026 Tetratricopeptide repeat; Region: TPR_6; pfam13174 579405004027 Tetratricopeptide repeat; Region: TPR_6; pfam13174 579405004028 Tetratricopeptide repeat; Region: TPR_6; pfam13174 579405004029 Protein of unknown function (DUF554); Region: DUF554; pfam04474 579405004030 quinolinate synthetase; Provisional; Region: PRK09375 579405004031 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 579405004032 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 579405004033 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 579405004034 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 579405004035 catalytic core [active] 579405004036 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 579405004037 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 579405004038 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 579405004039 HlyD family secretion protein; Region: HlyD_3; pfam13437 579405004040 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 579405004041 Outer membrane efflux protein; Region: OEP; pfam02321 579405004042 Outer membrane efflux protein; Region: OEP; pfam02321 579405004043 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 579405004044 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 579405004045 active site 579405004046 catalytic residues [active] 579405004047 galactokinase; Provisional; Region: PRK05101 579405004048 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 579405004049 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 579405004050 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 579405004051 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 579405004052 dimer interface [polypeptide binding]; other site 579405004053 active site 579405004054 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 579405004055 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 579405004056 NAD binding site [chemical binding]; other site 579405004057 homodimer interface [polypeptide binding]; other site 579405004058 active site 579405004059 substrate binding site [chemical binding]; other site 579405004060 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 579405004061 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405004062 Walker A/P-loop; other site 579405004063 ATP binding site [chemical binding]; other site 579405004064 Q-loop/lid; other site 579405004065 ABC transporter signature motif; other site 579405004066 Walker B; other site 579405004067 D-loop; other site 579405004068 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405004069 Walker A/P-loop; other site 579405004070 ATP binding site [chemical binding]; other site 579405004071 Q-loop/lid; other site 579405004072 ABC transporter signature motif; other site 579405004073 Walker B; other site 579405004074 D-loop; other site 579405004075 H-loop/switch region; other site 579405004076 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 579405004077 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 579405004078 molybdenum-pterin binding domain; Region: Mop; TIGR00638 579405004079 TOBE domain; Region: TOBE; pfam03459 579405004080 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 579405004081 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 579405004082 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 579405004083 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 579405004084 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 579405004085 dimer interface [polypeptide binding]; other site 579405004086 conserved gate region; other site 579405004087 putative PBP binding loops; other site 579405004088 ABC-ATPase subunit interface; other site 579405004089 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 579405004090 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405004091 Walker A/P-loop; other site 579405004092 ATP binding site [chemical binding]; other site 579405004093 Q-loop/lid; other site 579405004094 ABC transporter signature motif; other site 579405004095 Walker B; other site 579405004096 D-loop; other site 579405004097 H-loop/switch region; other site 579405004098 molybdenum-pterin binding domain; Region: Mop; TIGR00638 579405004099 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 579405004100 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 579405004101 active site 579405004102 motif I; other site 579405004103 motif II; other site 579405004104 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 579405004105 6-phosphogluconolactonase; Provisional; Region: PRK11028 579405004106 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 579405004107 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405004108 Walker A/P-loop; other site 579405004109 ATP binding site [chemical binding]; other site 579405004110 Q-loop/lid; other site 579405004111 ABC transporter signature motif; other site 579405004112 Walker B; other site 579405004113 D-loop; other site 579405004114 H-loop/switch region; other site 579405004115 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405004116 Walker A/P-loop; other site 579405004117 ATP binding site [chemical binding]; other site 579405004118 Q-loop/lid; other site 579405004119 ABC transporter signature motif; other site 579405004120 Walker B; other site 579405004121 D-loop; other site 579405004122 H-loop/switch region; other site 579405004123 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405004124 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 579405004125 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 579405004126 active site residue [active] 579405004127 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 579405004128 active site residue [active] 579405004129 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 579405004130 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 579405004131 D-cysteine desulfhydrase; Validated; Region: PRK03910 579405004132 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; cl00342 579405004133 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 579405004134 catalytic residue [active] 579405004135 hypothetical protein; Provisional; Region: PRK06446 579405004136 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 579405004137 metal binding site [ion binding]; metal-binding site 579405004138 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 579405004139 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 579405004140 dimer interface [polypeptide binding]; other site 579405004141 conserved gate region; other site 579405004142 putative PBP binding loops; other site 579405004143 ABC-ATPase subunit interface; other site 579405004144 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 579405004145 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 579405004146 dimer interface [polypeptide binding]; other site 579405004147 conserved gate region; other site 579405004148 putative PBP binding loops; other site 579405004149 ABC-ATPase subunit interface; other site 579405004150 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_2; cd08498 579405004151 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 579405004152 colanic acid/biofilm transcriptional regulator; Provisional; Region: PRK11414 579405004153 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405004154 DNA-binding site [nucleotide binding]; DNA binding site 579405004155 FCD domain; Region: FCD; pfam07729 579405004156 Uncharacterized conserved protein [Function unknown]; Region: COG5276 579405004157 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 579405004158 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 579405004159 putative ligand binding site [chemical binding]; other site 579405004160 VirK protein; Region: VirK; pfam06903 579405004161 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 579405004162 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 579405004163 active site 579405004164 HIGH motif; other site 579405004165 KMSKS motif; other site 579405004166 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 579405004167 tRNA binding surface [nucleotide binding]; other site 579405004168 anticodon binding site; other site 579405004169 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 579405004170 dimer interface [polypeptide binding]; other site 579405004171 putative tRNA-binding site [nucleotide binding]; other site 579405004172 antiporter inner membrane protein; Provisional; Region: PRK11670 579405004173 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 579405004174 Walker A motif; other site 579405004175 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 579405004176 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 579405004177 ATP-binding site [chemical binding]; other site 579405004178 Sugar specificity; other site 579405004179 Pyrimidine base specificity; other site 579405004180 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 579405004181 trimer interface [polypeptide binding]; other site 579405004182 active site 579405004183 putative assembly protein; Provisional; Region: PRK10833 579405004184 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 579405004185 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 579405004186 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 579405004187 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 579405004188 Transporter associated domain; Region: CorC_HlyC; smart01091 579405004189 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 579405004190 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 579405004191 putative NAD(P) binding site [chemical binding]; other site 579405004192 active site 579405004193 putative substrate binding site [chemical binding]; other site 579405004194 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 579405004195 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 579405004196 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 579405004197 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 579405004198 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 579405004199 active site 579405004200 tetramer interface; other site 579405004201 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 579405004202 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 579405004203 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 579405004204 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 579405004205 MASE2 domain; Region: MASE2; pfam05230 579405004206 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 579405004207 metal binding site [ion binding]; metal-binding site 579405004208 active site 579405004209 I-site; other site 579405004210 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405004211 DNA-binding site [nucleotide binding]; DNA binding site 579405004212 Transcriptional regulators [Transcription]; Region: GntR; COG1802 579405004213 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 579405004214 DNA-binding site [nucleotide binding]; DNA binding site 579405004215 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 579405004216 Protein of unknown function (DUF535); Region: DUF535; pfam04393 579405004217 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 579405004218 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 579405004219 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 579405004220 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 579405004221 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 579405004222 intersubunit interface [polypeptide binding]; other site 579405004223 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 579405004224 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 579405004225 dimer interface [polypeptide binding]; other site 579405004226 putative PBP binding regions; other site 579405004227 ABC-ATPase subunit interface; other site 579405004228 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 579405004229 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 579405004230 Walker A/P-loop; other site 579405004231 ATP binding site [chemical binding]; other site 579405004232 Q-loop/lid; other site 579405004233 ABC transporter signature motif; other site 579405004234 Walker B; other site 579405004235 D-loop; other site 579405004236 H-loop/switch region; other site 579405004237 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 579405004238 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 579405004239 N-terminal plug; other site 579405004240 ligand-binding site [chemical binding]; other site 579405004241 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 579405004242 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 579405004243 dimerization interface [polypeptide binding]; other site 579405004244 DPS ferroxidase diiron center [ion binding]; other site 579405004245 ion pore; other site 579405004246 AMP nucleosidase; Provisional; Region: PRK08292 579405004247 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 579405004248 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 579405004249 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 579405004250 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 579405004251 metal binding site [ion binding]; metal-binding site 579405004252 putative dimer interface [polypeptide binding]; other site 579405004253 DKNYY family; Region: DKNYY; pfam13644 579405004254 DKNYY family; Region: DKNYY; pfam13644 579405004255 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 579405004256 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 579405004257 homodimer interface [polypeptide binding]; other site 579405004258 substrate-cofactor binding pocket; other site 579405004259 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405004260 catalytic residue [active] 579405004261 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 579405004262 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 579405004263 active site 579405004264 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 579405004265 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 579405004266 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 579405004267 metal binding site [ion binding]; metal-binding site 579405004268 active site 579405004269 I-site; other site 579405004270 Transcriptional regulator [Transcription]; Region: IclR; COG1414 579405004271 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 579405004272 putative DNA binding site [nucleotide binding]; other site 579405004273 putative Zn2+ binding site [ion binding]; other site 579405004274 Bacterial transcriptional regulator; Region: IclR; pfam01614 579405004275 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 579405004276 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 579405004277 NAD(P) binding site [chemical binding]; other site 579405004278 catalytic residues [active] 579405004279 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 579405004280 MASE2 domain; Region: MASE2; pfam05230 579405004281 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 579405004282 metal binding site [ion binding]; metal-binding site 579405004283 active site 579405004284 I-site; other site 579405004285 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 579405004286 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 579405004287 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 579405004288 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 579405004289 metal binding site [ion binding]; metal-binding site 579405004290 active site 579405004291 I-site; other site 579405004292 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 579405004293 Shikimate kinase; Region: SKI; pfam01202 579405004294 ATP-binding site [chemical binding]; other site 579405004295 Gluconate-6-phosphate binding site [chemical binding]; other site 579405004296 phosphogluconate dehydratase; Validated; Region: PRK09054 579405004297 6-phosphogluconate dehydratase; Region: edd; TIGR01196 579405004298 Cache domain; Region: Cache_1; pfam02743 579405004299 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 579405004300 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 579405004301 metal binding site [ion binding]; metal-binding site 579405004302 active site 579405004303 I-site; other site 579405004304 Major Facilitator Superfamily; Region: MFS_1; pfam07690 579405004305 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 579405004306 putative substrate translocation pore; other site 579405004307 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 579405004308 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 579405004309 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 579405004310 NAD(P) binding site [chemical binding]; other site 579405004311 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405004312 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405004313 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 579405004314 dimerization interface [polypeptide binding]; other site 579405004315 Uncharacterized conserved protein [Function unknown]; Region: COG1556 579405004316 iron-sulfur cluster-binding protein; Region: TIGR00273 579405004317 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 579405004318 4Fe-4S binding domain; Region: Fer4; cl02805 579405004319 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 579405004320 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 579405004321 Cysteine-rich domain; Region: CCG; pfam02754 579405004322 Cysteine-rich domain; Region: CCG; pfam02754 579405004323 Cupin domain; Region: Cupin_2; cl17218 579405004324 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 579405004325 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405004326 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405004327 hypothetical protein; Provisional; Region: PRK10711 579405004328 hypothetical protein; Provisional; Region: PRK01821 579405004329 CopC domain; Region: CopC; pfam04234 579405004330 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405004331 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405004332 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 579405004333 putative dimerization interface [polypeptide binding]; other site 579405004334 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 579405004335 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 579405004336 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 579405004337 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 579405004338 he Auxin Efflux Carrier (AEC) Family; Region: 2a69; TIGR00946 579405004339 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; pfam06833 579405004340 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 579405004341 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 579405004342 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 579405004343 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 579405004344 Coenzyme A transferase; Region: CoA_trans; cl17247 579405004345 short chain dehydrogenase; Provisional; Region: PRK08263 579405004346 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 579405004347 NADP binding site [chemical binding]; other site 579405004348 active site 579405004349 steroid binding site; other site 579405004350 short chain dehydrogenase; Validated; Region: PRK06182 579405004351 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 579405004352 NADP binding site [chemical binding]; other site 579405004353 active site 579405004354 steroid binding site; other site 579405004355 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 579405004356 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 579405004357 nucleophile elbow; other site 579405004358 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 579405004359 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 579405004360 NAD(P) binding site [chemical binding]; other site 579405004361 active site 579405004362 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 579405004363 Helix-turn-helix domain; Region: HTH_18; pfam12833 579405004364 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405004365 Post-segregation antitoxin CcdA; Region: CcdA; pfam07362 579405004366 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 579405004367 LysE type translocator; Region: LysE; cl00565 579405004368 Biofilm formation and stress response factor; Region: BsmA; pfam10014 579405004369 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 579405004370 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405004371 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 579405004372 dimerization interface [polypeptide binding]; other site 579405004373 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 579405004374 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 579405004375 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 579405004376 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 579405004377 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 579405004378 lac repressor; Reviewed; Region: lacI; PRK09526 579405004379 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 579405004380 DNA binding site [nucleotide binding] 579405004381 domain linker motif; other site 579405004382 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 579405004383 ligand binding site [chemical binding]; other site 579405004384 dimerization interface (open form) [polypeptide binding]; other site 579405004385 dimerization interface (closed form) [polypeptide binding]; other site 579405004386 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 579405004387 cell density-dependent motility repressor; Provisional; Region: PRK10082 579405004388 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405004389 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 579405004390 dimerization interface [polypeptide binding]; other site 579405004391 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 579405004392 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 579405004393 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 579405004394 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 579405004395 GAF domain; Region: GAF; cl17456 579405004396 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 579405004397 Walker A motif; other site 579405004398 ATP binding site [chemical binding]; other site 579405004399 Walker B motif; other site 579405004400 arginine finger; other site 579405004401 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 579405004402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 579405004403 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 579405004404 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 579405004405 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 579405004406 [4Fe-4S] binding site [ion binding]; other site 579405004407 molybdopterin cofactor binding site; other site 579405004408 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 579405004409 molybdopterin cofactor binding site; other site 579405004410 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 579405004411 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 579405004412 Transcriptional regulators [Transcription]; Region: GntR; COG1802 579405004413 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405004414 DNA-binding site [nucleotide binding]; DNA binding site 579405004415 FCD domain; Region: FCD; pfam07729 579405004416 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 579405004417 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 579405004418 inhibitor-cofactor binding pocket; inhibition site 579405004419 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405004420 catalytic residue [active] 579405004421 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 579405004422 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 579405004423 active site 579405004424 ATP binding site [chemical binding]; other site 579405004425 substrate binding site [chemical binding]; other site 579405004426 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 579405004427 classical (c) SDRs; Region: SDR_c; cd05233 579405004428 NAD(P) binding site [chemical binding]; other site 579405004429 active site 579405004430 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 579405004431 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 579405004432 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 579405004433 nickel binding site [ion binding]; other site 579405004434 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 579405004435 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 579405004436 hydrogenase 4 subunit H; Validated; Region: PRK08222 579405004437 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 579405004438 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 579405004439 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 579405004440 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 579405004441 hydrogenase 4 subunit F; Validated; Region: PRK06458 579405004442 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 579405004443 hydrogenase 4 membrane subunit; Provisional; Region: hyfE; PRK11492 579405004444 hydrogenase 4 subunit D; Validated; Region: PRK06525 579405004445 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 579405004446 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 579405004447 NADH dehydrogenase; Region: NADHdh; cl00469 579405004448 hydrogenase 4 subunit B; Validated; Region: PRK06521 579405004449 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 579405004450 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 579405004451 4Fe-4S binding domain; Region: Fer4; pfam00037 579405004452 HupF/HypC family; Region: HupF_HypC; cl00394 579405004453 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 579405004454 EamA-like transporter family; Region: EamA; pfam00892 579405004455 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 579405004456 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 579405004457 substrate binding site [chemical binding]; other site 579405004458 dimerization interface [polypeptide binding]; other site 579405004459 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 579405004460 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 579405004461 Cupin domain; Region: Cupin_2; cl17218 579405004462 Helix-turn-helix domain; Region: HTH_18; pfam12833 579405004463 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405004464 2-isopropylmalate synthase; Validated; Region: PRK03739 579405004465 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 579405004466 active site 579405004467 catalytic residues [active] 579405004468 metal binding site [ion binding]; metal-binding site 579405004469 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 579405004470 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 579405004471 putative active site [active] 579405004472 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 579405004473 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 579405004474 putative active site [active] 579405004475 metal binding site [ion binding]; metal-binding site 579405004476 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 579405004477 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 579405004478 putative PBP binding loops; other site 579405004479 dimer interface [polypeptide binding]; other site 579405004480 ABC-ATPase subunit interface; other site 579405004481 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 579405004482 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 579405004483 Walker A/P-loop; other site 579405004484 ATP binding site [chemical binding]; other site 579405004485 Q-loop/lid; other site 579405004486 ABC transporter signature motif; other site 579405004487 Walker B; other site 579405004488 D-loop; other site 579405004489 H-loop/switch region; other site 579405004490 NMT1-like family; Region: NMT1_2; pfam13379 579405004491 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 579405004492 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 579405004493 D-cysteine desulfhydrase; Validated; Region: PRK03910 579405004494 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; cl00342 579405004495 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 579405004496 catalytic residue [active] 579405004497 aspartate racemase; Region: asp_race; TIGR00035 579405004498 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 579405004499 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 579405004500 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 579405004501 tetrameric interface [polypeptide binding]; other site 579405004502 NAD binding site [chemical binding]; other site 579405004503 catalytic residues [active] 579405004504 substrate binding site [chemical binding]; other site 579405004505 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 579405004506 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 579405004507 inhibitor-cofactor binding pocket; inhibition site 579405004508 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405004509 catalytic residue [active] 579405004510 DNA methylase; Region: N6_N4_Mtase; cl17433 579405004511 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 579405004512 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405004513 DNA-binding site [nucleotide binding]; DNA binding site 579405004514 UTRA domain; Region: UTRA; pfam07702 579405004515 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 579405004516 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 579405004517 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 579405004518 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 579405004519 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 579405004520 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405004521 Walker A/P-loop; other site 579405004522 ATP binding site [chemical binding]; other site 579405004523 Q-loop/lid; other site 579405004524 ABC transporter signature motif; other site 579405004525 Walker B; other site 579405004526 D-loop; other site 579405004527 H-loop/switch region; other site 579405004528 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405004529 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 579405004530 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405004531 Walker A/P-loop; other site 579405004532 ATP binding site [chemical binding]; other site 579405004533 Q-loop/lid; other site 579405004534 ABC transporter signature motif; other site 579405004535 Walker B; other site 579405004536 D-loop; other site 579405004537 H-loop/switch region; other site 579405004538 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 579405004539 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 579405004540 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 579405004541 active site 579405004542 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 579405004543 AAA domain; Region: AAA_18; pfam13238 579405004544 active site 579405004545 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 579405004546 putative hydrolase; Provisional; Region: PRK02113 579405004547 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405004548 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405004549 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 579405004550 putative substrate binding pocket [chemical binding]; other site 579405004551 putative dimerization interface [polypeptide binding]; other site 579405004552 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 579405004553 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 579405004554 putative substrate translocation pore; other site 579405004555 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 579405004556 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 579405004557 Walker A/P-loop; other site 579405004558 ATP binding site [chemical binding]; other site 579405004559 Q-loop/lid; other site 579405004560 ABC transporter signature motif; other site 579405004561 Walker B; other site 579405004562 D-loop; other site 579405004563 H-loop/switch region; other site 579405004564 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 579405004565 Transferrin; Region: Transferrin; cl02460 579405004566 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 579405004567 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 579405004568 dimer interface [polypeptide binding]; other site 579405004569 conserved gate region; other site 579405004570 putative PBP binding loops; other site 579405004571 ABC-ATPase subunit interface; other site 579405004572 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 579405004573 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 579405004574 ABC transporter; Region: ABC_tran; pfam00005 579405004575 Q-loop/lid; other site 579405004576 ABC transporter signature motif; other site 579405004577 Walker B; other site 579405004578 D-loop; other site 579405004579 H-loop/switch region; other site 579405004580 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 579405004581 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 579405004582 YcfA-like protein; Region: YcfA; pfam07927 579405004583 AIPR protein; Region: AIPR; pfam10592 579405004584 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 579405004585 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 579405004586 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 579405004587 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 579405004588 inhibitor site; inhibition site 579405004589 active site 579405004590 dimer interface [polypeptide binding]; other site 579405004591 catalytic residue [active] 579405004592 galactoside permease; Reviewed; Region: lacY; PRK09528 579405004593 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 579405004594 putative substrate translocation pore; other site 579405004595 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 579405004596 Melibiase; Region: Melibiase; pfam02065 579405004597 Transcriptional regulators [Transcription]; Region: PurR; COG1609 579405004598 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 579405004599 DNA binding site [nucleotide binding] 579405004600 domain linker motif; other site 579405004601 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 579405004602 ligand binding site [chemical binding]; other site 579405004603 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 579405004604 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 579405004605 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 579405004606 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 579405004607 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 579405004608 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 579405004609 [4Fe-4S] binding site [ion binding]; other site 579405004610 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 579405004611 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 579405004612 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 579405004613 molybdopterin cofactor binding site; other site 579405004614 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 579405004615 active site 579405004616 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405004617 Coenzyme A binding pocket [chemical binding]; other site 579405004618 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 579405004619 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 579405004620 metal binding site [ion binding]; metal-binding site 579405004621 active site 579405004622 I-site; other site 579405004623 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 579405004624 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 579405004625 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 579405004626 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 579405004627 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 579405004628 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 579405004629 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 579405004630 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 579405004631 Walker A/P-loop; other site 579405004632 ATP binding site [chemical binding]; other site 579405004633 Q-loop/lid; other site 579405004634 ABC transporter signature motif; other site 579405004635 Walker B; other site 579405004636 D-loop; other site 579405004637 H-loop/switch region; other site 579405004638 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 579405004639 dimer interface [polypeptide binding]; other site 579405004640 conserved gate region; other site 579405004641 ABC-ATPase subunit interface; other site 579405004642 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 579405004643 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 579405004644 nucleotide binding site [chemical binding]; other site 579405004645 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 579405004646 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 579405004647 dimer interface [polypeptide binding]; other site 579405004648 conserved gate region; other site 579405004649 putative PBP binding loops; other site 579405004650 ABC-ATPase subunit interface; other site 579405004651 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 579405004652 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 579405004653 dimer interface [polypeptide binding]; other site 579405004654 conserved gate region; other site 579405004655 putative PBP binding loops; other site 579405004656 ABC-ATPase subunit interface; other site 579405004657 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 579405004658 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405004659 Walker A/P-loop; other site 579405004660 ATP binding site [chemical binding]; other site 579405004661 Q-loop/lid; other site 579405004662 ABC transporter signature motif; other site 579405004663 Walker B; other site 579405004664 D-loop; other site 579405004665 H-loop/switch region; other site 579405004666 TOBE domain; Region: TOBE_2; pfam08402 579405004667 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 579405004668 putative catalytic site [active] 579405004669 putative metal binding site [ion binding]; other site 579405004670 putative phosphate binding site [ion binding]; other site 579405004671 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 579405004672 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 579405004673 catalytic residues [active] 579405004674 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 579405004675 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 579405004676 Walker A/P-loop; other site 579405004677 ATP binding site [chemical binding]; other site 579405004678 Q-loop/lid; other site 579405004679 ABC transporter signature motif; other site 579405004680 Walker B; other site 579405004681 D-loop; other site 579405004682 H-loop/switch region; other site 579405004683 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 579405004684 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 579405004685 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 579405004686 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 579405004687 dimer interface [polypeptide binding]; other site 579405004688 conserved gate region; other site 579405004689 putative PBP binding loops; other site 579405004690 ABC-ATPase subunit interface; other site 579405004691 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 579405004692 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; cl17432 579405004693 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405004694 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405004695 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 579405004696 dimerization interface [polypeptide binding]; other site 579405004697 CDP-diacylglycerol pyrophosphatase; Provisional; Region: PRK05471 579405004698 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 579405004699 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 579405004700 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 579405004701 putative active site [active] 579405004702 heme pocket [chemical binding]; other site 579405004703 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 579405004704 putative active site [active] 579405004705 heme pocket [chemical binding]; other site 579405004706 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 579405004707 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 579405004708 metal binding site [ion binding]; metal-binding site 579405004709 active site 579405004710 I-site; other site 579405004711 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 579405004712 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 579405004713 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 579405004714 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 579405004715 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 579405004716 active site 579405004717 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 579405004718 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405004719 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405004720 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 579405004721 dimerization interface [polypeptide binding]; other site 579405004722 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 579405004723 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 579405004724 dimer interface [polypeptide binding]; other site 579405004725 active site 579405004726 heme binding site [chemical binding]; other site 579405004727 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 579405004728 PAS fold; Region: PAS; pfam00989 579405004729 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 579405004730 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 579405004731 Walker A motif; other site 579405004732 ATP binding site [chemical binding]; other site 579405004733 Walker B motif; other site 579405004734 arginine finger; other site 579405004735 putative transporter; Provisional; Region: PRK10504 579405004736 FMN-binding domain; Region: FMN_bind; pfam04205 579405004737 tricarballylate dehydrogenase; Validated; Region: PRK08274 579405004738 Carbohydrate-selective porin, OprB family; Region: OprB; cl17816 579405004739 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 579405004740 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 579405004741 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 579405004742 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405004743 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405004744 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 579405004745 dimerization interface [polypeptide binding]; other site 579405004746 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 579405004747 substrate binding site [chemical binding]; other site 579405004748 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 579405004749 oxyanion hole (OAH) forming residues; other site 579405004750 trimer interface [polypeptide binding]; other site 579405004751 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 579405004752 putative acyltransferase; Provisional; Region: PRK05790 579405004753 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 579405004754 dimer interface [polypeptide binding]; other site 579405004755 active site 579405004756 Coenzyme A transferase; Region: CoA_trans; cl17247 579405004757 Coenzyme A transferase; Region: CoA_trans; cl17247 579405004758 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 579405004759 Major Facilitator Superfamily; Region: MFS_1; pfam07690 579405004760 putative substrate translocation pore; other site 579405004761 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 579405004762 putative acyltransferase; Provisional; Region: PRK05790 579405004763 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 579405004764 dimer interface [polypeptide binding]; other site 579405004765 active site 579405004766 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 579405004767 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 579405004768 substrate binding site [chemical binding]; other site 579405004769 ATP binding site [chemical binding]; other site 579405004770 Domain of unknown function (DUF1870); Region: DUF1870; pfam08965 579405004771 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 579405004772 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 579405004773 ADP binding site [chemical binding]; other site 579405004774 magnesium binding site [ion binding]; other site 579405004775 putative shikimate binding site; other site 579405004776 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 579405004777 putative substrate translocation pore; other site 579405004778 Major Facilitator Superfamily; Region: MFS_1; pfam07690 579405004779 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405004780 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405004781 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 579405004782 putative dimerization interface [polypeptide binding]; other site 579405004783 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 579405004784 Major Facilitator Superfamily; Region: MFS_1; pfam07690 579405004785 putative substrate translocation pore; other site 579405004786 quinate/shikimate dehydrogenase; Reviewed; Region: PRK12749 579405004787 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 579405004788 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 579405004789 shikimate binding site; other site 579405004790 NAD(P) binding site [chemical binding]; other site 579405004791 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 579405004792 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 579405004793 active site 579405004794 catalytic residue [active] 579405004795 dimer interface [polypeptide binding]; other site 579405004796 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 579405004797 Coenzyme A transferase; Region: CoA_trans; smart00882 579405004798 Coenzyme A transferase; Region: CoA_trans; cl17247 579405004799 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 579405004800 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 579405004801 active site 579405004802 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 579405004803 Helix-turn-helix domain; Region: HTH_18; pfam12833 579405004804 Chitin synthase; Region: Chitin_synth_1; pfam01644 579405004805 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 579405004806 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 579405004807 active site 579405004808 outer membrane porin, OprD family; Region: OprD; pfam03573 579405004809 Cupin domain; Region: Cupin_2; pfam07883 579405004810 Winged helix DNA-binding domain (DUF1495); Region: DUF1495; cl01336 579405004811 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 579405004812 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405004813 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 579405004814 Ligand binding site [chemical binding]; other site 579405004815 Electron transfer flavoprotein domain; Region: ETF; pfam01012 579405004816 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 579405004817 electron transfer flavoprotein subunit YdiR; Provisional; Region: PRK11916 579405004818 Electron transfer flavoprotein domain; Region: ETF; smart00893 579405004819 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 579405004820 oxidoreductase; Provisional; Region: PRK10015 579405004821 ferredoxin-like protein FixX; Provisional; Region: PRK15449 579405004822 short chain acyl-CoA synthetase; Reviewed; Region: PRK06087 579405004823 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 579405004824 acyl-activating enzyme (AAE) consensus motif; other site 579405004825 putative AMP binding site [chemical binding]; other site 579405004826 putative active site [active] 579405004827 putative CoA binding site [chemical binding]; other site 579405004828 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 579405004829 Helix-turn-helix domain; Region: HTH_18; pfam12833 579405004830 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405004831 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 579405004832 D-galactonate transporter; Region: 2A0114; TIGR00893 579405004833 putative substrate translocation pore; other site 579405004834 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 579405004835 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 579405004836 active site 579405004837 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 579405004838 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 579405004839 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 579405004840 active site 579405004841 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 579405004842 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 579405004843 non-heme iron binding site [ion binding]; other site 579405004844 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 579405004845 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 579405004846 active site turn [active] 579405004847 phosphorylation site [posttranslational modification] 579405004848 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 579405004849 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 579405004850 HPr interaction site; other site 579405004851 glycerol kinase (GK) interaction site [polypeptide binding]; other site 579405004852 active site 579405004853 phosphorylation site [posttranslational modification] 579405004854 CAT RNA binding domain; Region: CAT_RBD; smart01061 579405004855 PRD domain; Region: PRD; pfam00874 579405004856 PRD domain; Region: PRD; pfam00874 579405004857 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 579405004858 beta-galactosidase; Region: BGL; TIGR03356 579405004859 Uncharacterized conserved protein [Function unknown]; Region: COG2850 579405004860 putative NAD(P)-binding oxidoreductase; Provisional; Region: PRK09730 579405004861 classical (c) SDRs; Region: SDR_c; cd05233 579405004862 NAD(P) binding site [chemical binding]; other site 579405004863 active site 579405004864 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 579405004865 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 579405004866 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405004867 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405004868 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 579405004869 dimerization interface [polypeptide binding]; other site 579405004870 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 579405004871 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 579405004872 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 579405004873 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 579405004874 substrate binding site [chemical binding]; other site 579405004875 oxyanion hole (OAH) forming residues; other site 579405004876 trimer interface [polypeptide binding]; other site 579405004877 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 579405004878 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 579405004879 substrate binding site [chemical binding]; other site 579405004880 oxyanion hole (OAH) forming residues; other site 579405004881 trimer interface [polypeptide binding]; other site 579405004882 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 579405004883 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 579405004884 dimer interface [polypeptide binding]; other site 579405004885 active site 579405004886 polyketide beta-ketoacyl:acyl carrier protein synthase; Validated; Region: PRK07103 579405004887 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 579405004888 dimer interface [polypeptide binding]; other site 579405004889 active site 579405004890 acyl carrier protein; Validated; Region: PRK07117 579405004891 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 579405004892 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 579405004893 FkbH-like domain; Region: FkbH; TIGR01686 579405004894 HAD-superfamily phosphatase, subfamily IIIC; Region: HAD-SF-IIIC; TIGR01681 579405004895 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 579405004896 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 579405004897 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 579405004898 active site 579405004899 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 579405004900 substrate binding site [chemical binding]; other site 579405004901 trimer interface [polypeptide binding]; other site 579405004902 oxyanion hole (OAH) forming residues; other site 579405004903 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 579405004904 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 579405004905 substrate binding site [chemical binding]; other site 579405004906 oxyanion hole (OAH) forming residues; other site 579405004907 trimer interface [polypeptide binding]; other site 579405004908 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 579405004909 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 579405004910 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 579405004911 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 579405004912 active site 579405004913 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 579405004914 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405004915 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 579405004916 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 579405004917 active site 579405004918 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 579405004919 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 579405004920 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 579405004921 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 579405004922 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 579405004923 active site 579405004924 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 579405004925 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 579405004926 putative NADP binding site [chemical binding]; other site 579405004927 active site 579405004928 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405004929 natural product biosynthesis luciferase-like monooxygenase domain; Region: seco_metab_LLM; TIGR04020 579405004930 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 579405004931 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 579405004932 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 579405004933 active site 579405004934 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 579405004935 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 579405004936 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 579405004937 active site 579405004938 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 579405004939 putative NADP binding site [chemical binding]; other site 579405004940 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 579405004941 active site 579405004942 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405004943 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 579405004944 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 579405004945 active site 579405004946 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 579405004947 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 579405004948 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 579405004949 putative NADP binding site [chemical binding]; other site 579405004950 active site 579405004951 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405004952 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 579405004953 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 579405004954 active site 579405004955 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 579405004956 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 579405004957 KR domain; Region: KR; pfam08659 579405004958 putative NADP binding site [chemical binding]; other site 579405004959 active site 579405004960 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 579405004961 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 579405004962 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 579405004963 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 579405004964 active site 579405004965 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405004966 polyketide beta-ketoacyl:acyl carrier protein synthase; Validated; Region: PRK07103 579405004967 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 579405004968 active site 579405004969 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405004970 Cupin-like domain; Region: Cupin_8; pfam13621 579405004971 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 579405004972 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 579405004973 active site 579405004974 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 579405004975 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 579405004976 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 579405004977 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 579405004978 active site 579405004979 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 579405004980 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 579405004981 putative NADP binding site [chemical binding]; other site 579405004982 active site 579405004983 Methyltransferase domain; Region: Methyltransf_12; pfam08242 579405004984 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 579405004985 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 579405004986 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 579405004987 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 579405004988 active site 579405004989 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405004990 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 579405004991 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 579405004992 active site 579405004993 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 579405004994 putative NADP binding site [chemical binding]; other site 579405004995 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 579405004996 active site 579405004997 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405004998 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 579405004999 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 579405005000 active site 579405005001 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 579405005002 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 579405005003 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 579405005004 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 579405005005 active site 579405005006 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405005007 Condensation domain; Region: Condensation; pfam00668 579405005008 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 579405005009 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 579405005010 FMN binding site [chemical binding]; other site 579405005011 substrate binding site [chemical binding]; other site 579405005012 putative catalytic residue [active] 579405005013 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 579405005014 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 579405005015 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 579405005016 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 579405005017 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 579405005018 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; cl00164 579405005019 active site turn [active] 579405005020 phosphorylation site [posttranslational modification] 579405005021 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405005022 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405005023 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 579405005024 dimerization interface [polypeptide binding]; other site 579405005025 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 579405005026 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_2; cd08498 579405005027 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 579405005028 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 579405005029 inhibitor site; inhibition site 579405005030 active site 579405005031 dimer interface [polypeptide binding]; other site 579405005032 catalytic residue [active] 579405005033 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 579405005034 active site 579405005035 tetramer interface [polypeptide binding]; other site 579405005036 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 579405005037 active site 579405005038 tetramer interface [polypeptide binding]; other site 579405005039 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 579405005040 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 579405005041 dimer interface [polypeptide binding]; other site 579405005042 conserved gate region; other site 579405005043 putative PBP binding loops; other site 579405005044 ABC-ATPase subunit interface; other site 579405005045 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 579405005046 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 579405005047 dimer interface [polypeptide binding]; other site 579405005048 conserved gate region; other site 579405005049 putative PBP binding loops; other site 579405005050 ABC-ATPase subunit interface; other site 579405005051 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 579405005052 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405005053 Walker A/P-loop; other site 579405005054 ATP binding site [chemical binding]; other site 579405005055 Q-loop/lid; other site 579405005056 ABC transporter signature motif; other site 579405005057 Walker B; other site 579405005058 D-loop; other site 579405005059 H-loop/switch region; other site 579405005060 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405005061 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405005062 Walker A/P-loop; other site 579405005063 ATP binding site [chemical binding]; other site 579405005064 Q-loop/lid; other site 579405005065 ABC transporter signature motif; other site 579405005066 Walker B; other site 579405005067 D-loop; other site 579405005068 H-loop/switch region; other site 579405005069 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 579405005070 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405005071 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 579405005072 hypothetical protein; Provisional; Region: PRK10613 579405005073 response regulator; Provisional; Region: PRK09483 579405005074 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 579405005075 active site 579405005076 phosphorylation site [posttranslational modification] 579405005077 intermolecular recognition site; other site 579405005078 dimerization interface [polypeptide binding]; other site 579405005079 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 579405005080 DNA binding residues [nucleotide binding] 579405005081 dimerization interface [polypeptide binding]; other site 579405005082 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 579405005083 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 579405005084 GIY-YIG motif/motif A; other site 579405005085 active site 579405005086 catalytic site [active] 579405005087 putative DNA binding site [nucleotide binding]; other site 579405005088 metal binding site [ion binding]; metal-binding site 579405005089 UvrB/uvrC motif; Region: UVR; pfam02151 579405005090 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 579405005091 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 579405005092 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 579405005093 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 579405005094 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 579405005095 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 579405005096 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 579405005097 substrate binding site [chemical binding]; other site 579405005098 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 579405005099 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 579405005100 substrate binding site [chemical binding]; other site 579405005101 ligand binding site [chemical binding]; other site 579405005102 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 579405005103 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 579405005104 active site 579405005105 iron coordination sites [ion binding]; other site 579405005106 substrate binding pocket [chemical binding]; other site 579405005107 aspartate aminotransferase; Provisional; Region: PRK05764 579405005108 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 579405005109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405005110 homodimer interface [polypeptide binding]; other site 579405005111 catalytic residue [active] 579405005112 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 579405005113 Isochorismatase family; Region: Isochorismatase; pfam00857 579405005114 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 579405005115 catalytic triad [active] 579405005116 conserved cis-peptide bond; other site 579405005117 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 579405005118 Major Facilitator Superfamily; Region: MFS_1; pfam07690 579405005119 putative substrate translocation pore; other site 579405005120 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 579405005121 oligomeric interface; other site 579405005122 putative active site [active] 579405005123 homodimer interface [polypeptide binding]; other site 579405005124 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 579405005125 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 579405005126 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 579405005127 homodimer interface [polypeptide binding]; other site 579405005128 substrate-cofactor binding pocket; other site 579405005129 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405005130 catalytic residue [active] 579405005131 aminotransferase; Validated; Region: PRK08175 579405005132 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 579405005133 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405005134 homodimer interface [polypeptide binding]; other site 579405005135 catalytic residue [active] 579405005136 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 579405005137 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 579405005138 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 579405005139 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 579405005140 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 579405005141 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 579405005142 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 579405005143 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 579405005144 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 579405005145 type II secretion system protein E; Region: type_II_gspE; TIGR02533 579405005146 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 579405005147 Walker A motif; other site 579405005148 ATP binding site [chemical binding]; other site 579405005149 Walker B motif; other site 579405005150 type II secretion system protein F; Region: GspF; TIGR02120 579405005151 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 579405005152 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 579405005153 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 579405005154 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 579405005155 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 579405005156 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 579405005157 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 579405005158 type II secretion system protein I; Region: gspI; TIGR01707 579405005159 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 579405005160 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 579405005161 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 579405005162 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 579405005163 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 579405005164 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 579405005165 GspL periplasmic domain; Region: GspL_C; pfam12693 579405005166 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 579405005167 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 579405005168 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 579405005169 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 579405005170 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 579405005171 putative ligand binding residues [chemical binding]; other site 579405005172 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 579405005173 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 579405005174 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 579405005175 ABC-ATPase subunit interface; other site 579405005176 dimer interface [polypeptide binding]; other site 579405005177 putative PBP binding regions; other site 579405005178 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 579405005179 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405005180 Walker A/P-loop; other site 579405005181 ATP binding site [chemical binding]; other site 579405005182 Q-loop/lid; other site 579405005183 ABC transporter signature motif; other site 579405005184 Walker B; other site 579405005185 D-loop; other site 579405005186 H-loop/switch region; other site 579405005187 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 579405005188 molybdate ABC transporter periplasmic molybdate-binding protein; Provisional; Region: PRK03537 579405005189 Serine hydrolase; Region: Ser_hydrolase; pfam06821 579405005190 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 579405005191 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 579405005192 CoenzymeA binding site [chemical binding]; other site 579405005193 subunit interaction site [polypeptide binding]; other site 579405005194 PHB binding site; other site 579405005195 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 579405005196 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 579405005197 putative NAD(P) binding site [chemical binding]; other site 579405005198 active site 579405005199 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 579405005200 hydrophobic substrate binding pocket; other site 579405005201 Isochorismatase family; Region: Isochorismatase; pfam00857 579405005202 active site 579405005203 conserved cis-peptide bond; other site 579405005204 Phosphopantetheine attachment site; Region: PP-binding; cl09936 579405005205 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 579405005206 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 579405005207 acyl-activating enzyme (AAE) consensus motif; other site 579405005208 active site 579405005209 AMP binding site [chemical binding]; other site 579405005210 substrate binding site [chemical binding]; other site 579405005211 isochorismate synthase EntC; Provisional; Region: PRK15016 579405005212 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 579405005213 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 579405005214 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 579405005215 N-terminal plug; other site 579405005216 ligand-binding site [chemical binding]; other site 579405005217 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 579405005218 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 579405005219 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 579405005220 MbtH-like protein; Region: MbtH; pfam03621 579405005221 Condensation domain; Region: Condensation; pfam00668 579405005222 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 579405005223 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 579405005224 acyl-activating enzyme (AAE) consensus motif; other site 579405005225 AMP binding site [chemical binding]; other site 579405005226 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405005227 Condensation domain; Region: Condensation; pfam00668 579405005228 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 579405005229 Condensation domain; Region: Condensation; pfam00668 579405005230 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 579405005231 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 579405005232 acyl-activating enzyme (AAE) consensus motif; other site 579405005233 AMP binding site [chemical binding]; other site 579405005234 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405005235 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 579405005236 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 579405005237 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 579405005238 Walker A/P-loop; other site 579405005239 ATP binding site [chemical binding]; other site 579405005240 Q-loop/lid; other site 579405005241 ABC transporter signature motif; other site 579405005242 Walker B; other site 579405005243 D-loop; other site 579405005244 H-loop/switch region; other site 579405005245 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 579405005246 ABC-ATPase subunit interface; other site 579405005247 dimer interface [polypeptide binding]; other site 579405005248 putative PBP binding regions; other site 579405005249 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 579405005250 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 579405005251 ABC-ATPase subunit interface; other site 579405005252 dimer interface [polypeptide binding]; other site 579405005253 putative PBP binding regions; other site 579405005254 enterobactin exporter EntS; Provisional; Region: PRK10489 579405005255 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 579405005256 putative substrate translocation pore; other site 579405005257 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 579405005258 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 579405005259 siderophore binding site; other site 579405005260 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 579405005261 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 579405005262 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 579405005263 N-terminal plug; other site 579405005264 ligand-binding site [chemical binding]; other site 579405005265 Cytochrome b562; Region: Cytochrom_B562; cl01546 579405005266 MATE family multidrug exporter; Provisional; Region: PRK10189 579405005267 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 579405005268 hypothetical protein; Provisional; Region: PRK10708 579405005269 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 579405005270 dimer interface [polypeptide binding]; other site 579405005271 ligand binding site [chemical binding]; other site 579405005272 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 579405005273 dimerization interface [polypeptide binding]; other site 579405005274 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405005275 dimer interface [polypeptide binding]; other site 579405005276 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 579405005277 putative CheW interface [polypeptide binding]; other site 579405005278 transcriptional activator FlhD; Provisional; Region: PRK02909 579405005279 transcriptional activator FlhC; Provisional; Region: PRK12722 579405005280 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 579405005281 flagellar motor protein MotA; Validated; Region: PRK09110 579405005282 flagellar motor protein MotB; Validated; Region: motB; PRK09041 579405005283 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 579405005284 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 579405005285 ligand binding site [chemical binding]; other site 579405005286 chemotaxis protein CheA; Provisional; Region: PRK10547 579405005287 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 579405005288 putative binding surface; other site 579405005289 active site 579405005290 CheY binding; Region: CheY-binding; pfam09078 579405005291 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 579405005292 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 579405005293 ATP binding site [chemical binding]; other site 579405005294 Mg2+ binding site [ion binding]; other site 579405005295 G-X-G motif; other site 579405005296 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 579405005297 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 579405005298 putative CheA interaction surface; other site 579405005299 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 579405005300 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 579405005301 dimer interface [polypeptide binding]; other site 579405005302 ligand binding site [chemical binding]; other site 579405005303 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 579405005304 dimerization interface [polypeptide binding]; other site 579405005305 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405005306 dimer interface [polypeptide binding]; other site 579405005307 putative CheW interface [polypeptide binding]; other site 579405005308 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 579405005309 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 579405005310 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 579405005311 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 579405005312 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 579405005313 active site 579405005314 phosphorylation site [posttranslational modification] 579405005315 intermolecular recognition site; other site 579405005316 dimerization interface [polypeptide binding]; other site 579405005317 CheB methylesterase; Region: CheB_methylest; pfam01339 579405005318 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 579405005319 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 579405005320 active site 579405005321 phosphorylation site [posttranslational modification] 579405005322 intermolecular recognition site; other site 579405005323 dimerization interface [polypeptide binding]; other site 579405005324 chemotaxis regulator CheZ; Provisional; Region: PRK11166 579405005325 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK12468 579405005326 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 579405005327 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 579405005328 FHIPEP family; Region: FHIPEP; pfam00771 579405005329 Flagellar protein FlhE; Region: FlhE; pfam06366 579405005330 FlgN protein; Region: FlgN; cl09176 579405005331 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 579405005332 SAF-like; Region: SAF_2; pfam13144 579405005333 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 579405005334 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 579405005335 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 579405005336 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 579405005337 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 579405005338 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 579405005339 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 579405005340 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 579405005341 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 579405005342 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 579405005343 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 579405005344 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 579405005345 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 579405005346 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 579405005347 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 579405005348 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 579405005349 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 579405005350 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 579405005351 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 579405005352 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 579405005353 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 579405005354 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 579405005355 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 579405005356 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 579405005357 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 579405005358 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 579405005359 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 579405005360 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 579405005361 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 579405005362 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 579405005363 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 579405005364 flagellar capping protein; Reviewed; Region: fliD; PRK08032 579405005365 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 579405005366 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 579405005367 flagellar protein FliS; Validated; Region: fliS; PRK05685 579405005368 Flagellar protein FliT; Region: FliT; cl05125 579405005369 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 579405005370 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 579405005371 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 579405005372 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 579405005373 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 579405005374 FliG C-terminal domain; Region: FliG_C; pfam01706 579405005375 flagellar assembly protein H; Validated; Region: fliH; PRK05687 579405005376 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 579405005377 Flagellar assembly protein FliH; Region: FliH; pfam02108 579405005378 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 579405005379 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 579405005380 Walker A motif/ATP binding site; other site 579405005381 Walker B motif; other site 579405005382 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 579405005383 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 579405005384 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 579405005385 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 579405005386 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 579405005387 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 579405005388 flagellar motor switch protein FliN; Validated; Region: fliN; PRK07963 579405005389 Flagellar biogenesis protein [Cell motility and secretion]; Region: FliO; COG3190 579405005390 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 579405005391 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 579405005392 flagellin; Validated; Region: PRK06819 579405005393 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 579405005394 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 579405005395 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 579405005396 active site 579405005397 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 579405005398 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 579405005399 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 579405005400 active site 579405005401 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 579405005402 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 579405005403 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 579405005404 UDP-galactopyranose mutase; Region: GLF; pfam03275 579405005405 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 579405005406 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 579405005407 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 579405005408 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 579405005409 DNA binding residues [nucleotide binding] 579405005410 flagella biosynthesis protein FliZ; Provisional; Region: PRK11582 579405005411 hypothetical protein; Provisional; Region: PRK10536 579405005412 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 579405005413 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 579405005414 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405005415 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405005416 dimer interface [polypeptide binding]; other site 579405005417 putative CheW interface [polypeptide binding]; other site 579405005418 hypothetical protein; Provisional; Region: PRK09273 579405005419 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 579405005420 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 579405005421 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 579405005422 active site 1 [active] 579405005423 dimer interface [polypeptide binding]; other site 579405005424 active site 2 [active] 579405005425 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 579405005426 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 579405005427 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 579405005428 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 579405005429 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 579405005430 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 579405005431 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 579405005432 dimerization interface [polypeptide binding]; other site 579405005433 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405005434 dimer interface [polypeptide binding]; other site 579405005435 putative CheW interface [polypeptide binding]; other site 579405005436 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 579405005437 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 579405005438 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 579405005439 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 579405005440 Ligand binding site; other site 579405005441 DXD motif; other site 579405005442 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 579405005443 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 579405005444 putative acyl-acceptor binding pocket; other site 579405005445 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 579405005446 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 579405005447 active site 579405005448 FMN binding site [chemical binding]; other site 579405005449 substrate binding site [chemical binding]; other site 579405005450 homotetramer interface [polypeptide binding]; other site 579405005451 catalytic residue [active] 579405005452 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 579405005453 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 579405005454 active site residue [active] 579405005455 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 579405005456 DinI-like family; Region: DinI; cl11630 579405005457 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 579405005458 active site 579405005459 substrate binding pocket [chemical binding]; other site 579405005460 dimer interface [polypeptide binding]; other site 579405005461 Uncharacterized conserved protein [Function unknown]; Region: COG1359 579405005462 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 579405005463 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 579405005464 homodimer interface [polypeptide binding]; other site 579405005465 oligonucleotide binding site [chemical binding]; other site 579405005466 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 579405005467 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 579405005468 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 579405005469 RNA binding surface [nucleotide binding]; other site 579405005470 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 579405005471 active site 579405005472 Maf-like protein; Region: Maf; pfam02545 579405005473 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 579405005474 active site 579405005475 dimer interface [polypeptide binding]; other site 579405005476 hypothetical protein; Provisional; Region: PRK11193 579405005477 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 579405005478 putative phosphate acyltransferase; Provisional; Region: PRK05331 579405005479 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 579405005480 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 579405005481 dimer interface [polypeptide binding]; other site 579405005482 active site 579405005483 CoA binding pocket [chemical binding]; other site 579405005484 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 579405005485 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 579405005486 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 579405005487 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 579405005488 NAD(P) binding site [chemical binding]; other site 579405005489 homotetramer interface [polypeptide binding]; other site 579405005490 homodimer interface [polypeptide binding]; other site 579405005491 active site 579405005492 acyl carrier protein; Provisional; Region: acpP; PRK00982 579405005493 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 579405005494 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 579405005495 dimer interface [polypeptide binding]; other site 579405005496 active site 579405005497 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 579405005498 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 579405005499 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405005500 catalytic residue [active] 579405005501 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 579405005502 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 579405005503 dimerization interface [polypeptide binding]; other site 579405005504 thymidylate kinase; Validated; Region: tmk; PRK00698 579405005505 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 579405005506 TMP-binding site; other site 579405005507 ATP-binding site [chemical binding]; other site 579405005508 DNA polymerase III subunit delta'; Validated; Region: PRK07993 579405005509 DNA polymerase III subunit delta'; Validated; Region: PRK08485 579405005510 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 579405005511 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 579405005512 active site 579405005513 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 579405005514 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 579405005515 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 579405005516 active site turn [active] 579405005517 phosphorylation site [posttranslational modification] 579405005518 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 579405005519 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 579405005520 short chain dehydrogenase; Provisional; Region: PRK06197 579405005521 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 579405005522 putative NAD(P) binding site [chemical binding]; other site 579405005523 active site 579405005524 short chain dehydrogenase; Provisional; Region: PRK06172 579405005525 classical (c) SDRs; Region: SDR_c; cd05233 579405005526 NAD(P) binding site [chemical binding]; other site 579405005527 active site 579405005528 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 579405005529 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 579405005530 nucleotide binding site/active site [active] 579405005531 HIT family signature motif; other site 579405005532 catalytic residue [active] 579405005533 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 579405005534 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 579405005535 putative dimer interface [polypeptide binding]; other site 579405005536 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 579405005537 thiamine kinase; Region: ycfN_thiK; TIGR02721 579405005538 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 579405005539 active site 579405005540 substrate binding site [chemical binding]; other site 579405005541 ATP binding site [chemical binding]; other site 579405005542 beta-hexosaminidase; Provisional; Region: PRK05337 579405005543 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 579405005544 hypothetical protein; Provisional; Region: PRK04940 579405005545 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 579405005546 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 579405005547 hypothetical protein; Provisional; Region: PRK11280 579405005548 Transcriptional regulators [Transcription]; Region: PurR; COG1609 579405005549 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 579405005550 DNA binding site [nucleotide binding] 579405005551 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 579405005552 ligand binding site [chemical binding]; other site 579405005553 dimerization interface [polypeptide binding]; other site 579405005554 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 579405005555 D-galactonate transporter; Region: 2A0114; TIGR00893 579405005556 putative substrate translocation pore; other site 579405005557 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 579405005558 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 579405005559 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 579405005560 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 579405005561 putative active site [active] 579405005562 putative catalytic site [active] 579405005563 N-acetyltransferase; Region: Acetyltransf_2; cl00949 579405005564 putative chaperone; Provisional; Region: PRK11678 579405005565 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 579405005566 nucleotide binding site [chemical binding]; other site 579405005567 putative NEF/HSP70 interaction site [polypeptide binding]; other site 579405005568 SBD interface [polypeptide binding]; other site 579405005569 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. 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...; Region: ASCH_Ef3133_like; cd06553 579405005570 phage resistance protein; Provisional; Region: PRK10551 579405005571 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 579405005572 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 579405005573 transcription-repair coupling factor; Provisional; Region: PRK10689 579405005574 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 579405005575 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 579405005576 ATP binding site [chemical binding]; other site 579405005577 putative Mg++ binding site [ion binding]; other site 579405005578 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 579405005579 nucleotide binding region [chemical binding]; other site 579405005580 ATP-binding site [chemical binding]; other site 579405005581 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 579405005582 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 579405005583 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 579405005584 FtsX-like permease family; Region: FtsX; pfam02687 579405005585 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 579405005586 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 579405005587 Walker A/P-loop; other site 579405005588 ATP binding site [chemical binding]; other site 579405005589 Q-loop/lid; other site 579405005590 ABC transporter signature motif; other site 579405005591 Walker B; other site 579405005592 D-loop; other site 579405005593 H-loop/switch region; other site 579405005594 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 579405005595 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 579405005596 FtsX-like permease family; Region: FtsX; pfam02687 579405005597 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 579405005598 fructokinase; Reviewed; Region: PRK09557 579405005599 NAD-dependent deacetylase; Provisional; Region: PRK00481 579405005600 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 579405005601 NAD+ binding site [chemical binding]; other site 579405005602 substrate binding site [chemical binding]; other site 579405005603 Zn binding site [ion binding]; other site 579405005604 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 579405005605 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 579405005606 ABC-ATPase subunit interface; other site 579405005607 dimer interface [polypeptide binding]; other site 579405005608 putative PBP binding regions; other site 579405005609 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 579405005610 catalytic residues [active] 579405005611 dimer interface [polypeptide binding]; other site 579405005612 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 579405005613 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 579405005614 Walker A/P-loop; other site 579405005615 ATP binding site [chemical binding]; other site 579405005616 Q-loop/lid; other site 579405005617 ABC transporter signature motif; other site 579405005618 Walker B; other site 579405005619 D-loop; other site 579405005620 H-loop/switch region; other site 579405005621 NlpC/P60 family; Region: NLPC_P60; pfam00877 579405005622 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 579405005623 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 579405005624 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 579405005625 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 579405005626 hypothetical protein; Validated; Region: PRK00029 579405005627 Uncharacterized conserved protein [Function unknown]; Region: COG0397 579405005628 murein L,D-transpeptidase; Provisional; Region: PRK10594 579405005629 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 579405005630 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 579405005631 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 579405005632 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 579405005633 Peptidase M15; Region: Peptidase_M15_3; cl01194 579405005634 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 579405005635 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 579405005636 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 579405005637 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405005638 homodimer interface [polypeptide binding]; other site 579405005639 catalytic residue [active] 579405005640 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 579405005641 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 579405005642 trimer interface [polypeptide binding]; other site 579405005643 eyelet of channel; other site 579405005644 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 579405005645 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 579405005646 eyelet of channel; other site 579405005647 trimer interface [polypeptide binding]; other site 579405005648 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 579405005649 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 579405005650 putative dimer interface [polypeptide binding]; other site 579405005651 putative anticodon binding site; other site 579405005652 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 579405005653 homodimer interface [polypeptide binding]; other site 579405005654 motif 1; other site 579405005655 motif 2; other site 579405005656 active site 579405005657 motif 3; other site 579405005658 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 579405005659 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 579405005660 active site 579405005661 aminopeptidase N; Provisional; Region: pepN; PRK14015 579405005662 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 579405005663 active site 579405005664 Zn binding site [ion binding]; other site 579405005665 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 579405005666 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 579405005667 Walker A/P-loop; other site 579405005668 ATP binding site [chemical binding]; other site 579405005669 Q-loop/lid; other site 579405005670 ABC transporter signature motif; other site 579405005671 Walker B; other site 579405005672 D-loop; other site 579405005673 H-loop/switch region; other site 579405005674 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 579405005675 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 579405005676 dimer interface [polypeptide binding]; other site 579405005677 conserved gate region; other site 579405005678 putative PBP binding loops; other site 579405005679 ABC-ATPase subunit interface; other site 579405005680 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 579405005681 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 579405005682 active site 579405005683 dimer interface [polypeptide binding]; other site 579405005684 non-prolyl cis peptide bond; other site 579405005685 insertion regions; other site 579405005686 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 579405005687 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 579405005688 substrate binding pocket [chemical binding]; other site 579405005689 membrane-bound complex binding site; other site 579405005690 hinge residues; other site 579405005691 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 579405005692 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 579405005693 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 579405005694 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 579405005695 quinone interaction residues [chemical binding]; other site 579405005696 active site 579405005697 catalytic residues [active] 579405005698 FMN binding site [chemical binding]; other site 579405005699 substrate binding site [chemical binding]; other site 579405005700 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 579405005701 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 579405005702 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 579405005703 MOSC domain; Region: MOSC; pfam03473 579405005704 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 579405005705 catalytic loop [active] 579405005706 iron binding site [ion binding]; other site 579405005707 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 579405005708 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 579405005709 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 579405005710 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 579405005711 S-adenosylmethionine binding site [chemical binding]; other site 579405005712 ABC transporter ATPase component; Reviewed; Region: PRK11147 579405005713 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 579405005714 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405005715 Walker A/P-loop; other site 579405005716 ATP binding site [chemical binding]; other site 579405005717 Q-loop/lid; other site 579405005718 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 579405005719 ABC transporter signature motif; other site 579405005720 Walker B; other site 579405005721 D-loop; other site 579405005722 ABC transporter; Region: ABC_tran_2; pfam12848 579405005723 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 579405005724 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 579405005725 Paraquat-inducible protein A; Region: PqiA; pfam04403 579405005726 Paraquat-inducible protein A; Region: PqiA; pfam04403 579405005727 paraquat-inducible protein B; Provisional; Region: PRK10807 579405005728 mce related protein; Region: MCE; pfam02470 579405005729 mce related protein; Region: MCE; pfam02470 579405005730 mce related protein; Region: MCE; pfam02470 579405005731 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 579405005732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 579405005733 Protein of unknown function (DUF330); Region: DUF330; pfam03886 579405005734 Ribosome modulation factor; Region: RMF; pfam04957 579405005735 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 579405005736 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 579405005737 PEP synthetase regulatory protein; Provisional; Region: PRK05339 579405005738 phosphoenolpyruvate synthase; Validated; Region: PRK06464 579405005739 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 579405005740 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 579405005741 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 579405005742 putative inner membrane protein; Provisional; Region: PRK10983 579405005743 Domain of unknown function DUF20; Region: UPF0118; pfam01594 579405005744 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 579405005745 FAD binding domain; Region: FAD_binding_4; pfam01565 579405005746 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 579405005747 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 579405005748 CoenzymeA binding site [chemical binding]; other site 579405005749 subunit interaction site [polypeptide binding]; other site 579405005750 PHB binding site; other site 579405005751 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 579405005752 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 579405005753 murein lipoprotein; Provisional; Region: PRK15396 579405005754 pyruvate kinase; Provisional; Region: PRK09206 579405005755 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 579405005756 domain interfaces; other site 579405005757 active site 579405005758 transcriptional antiterminator BglG; Provisional; Region: PRK09772 579405005759 CAT RNA binding domain; Region: CAT_RBD; smart01061 579405005760 PRD domain; Region: PRD; pfam00874 579405005761 PRD domain; Region: PRD; pfam00874 579405005762 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 579405005763 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 579405005764 active site turn [active] 579405005765 phosphorylation site [posttranslational modification] 579405005766 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 579405005767 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 579405005768 HPr interaction site; other site 579405005769 glycerol kinase (GK) interaction site [polypeptide binding]; other site 579405005770 active site 579405005771 phosphorylation site [posttranslational modification] 579405005772 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 579405005773 beta-galactosidase; Region: BGL; TIGR03356 579405005774 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 579405005775 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 579405005776 trimer interface; other site 579405005777 sugar binding site [chemical binding]; other site 579405005778 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 579405005779 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 579405005780 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 579405005781 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 579405005782 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 579405005783 Coenzyme A binding pocket [chemical binding]; other site 579405005784 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 579405005785 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 579405005786 dimer interface [polypeptide binding]; other site 579405005787 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405005788 catalytic residue [active] 579405005789 2,3-diaminopropionate biosynthesis protein SbnB; Region: dehyd_SbnB_fam; TIGR03944 579405005790 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 579405005791 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 579405005792 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 579405005793 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 579405005794 active site 579405005795 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 579405005796 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 579405005797 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 579405005798 Walker A/P-loop; other site 579405005799 ATP binding site [chemical binding]; other site 579405005800 Q-loop/lid; other site 579405005801 ABC transporter signature motif; other site 579405005802 Walker B; other site 579405005803 D-loop; other site 579405005804 H-loop/switch region; other site 579405005805 Condensation domain; Region: Condensation; pfam00668 579405005806 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 579405005807 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 579405005808 acyl-activating enzyme (AAE) consensus motif; other site 579405005809 AMP binding site [chemical binding]; other site 579405005810 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405005811 Condensation domain; Region: Condensation; pfam00668 579405005812 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 579405005813 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 579405005814 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 579405005815 acyl-activating enzyme (AAE) consensus motif; other site 579405005816 AMP binding site [chemical binding]; other site 579405005817 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405005818 Condensation domain; Region: Condensation; pfam00668 579405005819 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 579405005820 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 579405005821 acyl-activating enzyme (AAE) consensus motif; other site 579405005822 AMP binding site [chemical binding]; other site 579405005823 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405005824 Condensation domain; Region: Condensation; pfam00668 579405005825 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 579405005826 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 579405005827 acyl-activating enzyme (AAE) consensus motif; other site 579405005828 AMP binding site [chemical binding]; other site 579405005829 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405005830 Condensation domain; Region: Condensation; pfam00668 579405005831 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 579405005832 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 579405005833 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 579405005834 acyl-activating enzyme (AAE) consensus motif; other site 579405005835 AMP binding site [chemical binding]; other site 579405005836 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405005837 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 579405005838 Thioesterase domain; Region: Thioesterase; pfam00975 579405005839 multidrug efflux protein; Reviewed; Region: PRK01766 579405005840 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 579405005841 cation binding site [ion binding]; other site 579405005842 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 579405005843 Lumazine binding domain; Region: Lum_binding; pfam00677 579405005844 Lumazine binding domain; Region: Lum_binding; pfam00677 579405005845 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 579405005846 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 579405005847 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 579405005848 S-adenosylmethionine binding site [chemical binding]; other site 579405005849 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 579405005850 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 579405005851 DNA binding site [nucleotide binding] 579405005852 domain linker motif; other site 579405005853 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 579405005854 dimerization interface [polypeptide binding]; other site 579405005855 ligand binding site [chemical binding]; other site 579405005856 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 579405005857 NlpC/P60 family; Region: NLPC_P60; pfam00877 579405005858 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 579405005859 putative GSH binding site [chemical binding]; other site 579405005860 catalytic residues [active] 579405005861 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 579405005862 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 579405005863 dimer interface [polypeptide binding]; other site 579405005864 catalytic site [active] 579405005865 putative active site [active] 579405005866 putative substrate binding site [chemical binding]; other site 579405005867 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 579405005868 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 579405005869 dimer interface [polypeptide binding]; other site 579405005870 active site 579405005871 metal binding site [ion binding]; metal-binding site 579405005872 glutathione binding site [chemical binding]; other site 579405005873 transcriptional regulator SlyA; Provisional; Region: PRK03573 579405005874 MarR family; Region: MarR; pfam01047 579405005875 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 579405005876 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 579405005877 lysozyme inhibitor; Provisional; Region: PRK11372 579405005878 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 579405005879 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 579405005880 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 579405005881 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 579405005882 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 579405005883 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 579405005884 active site 579405005885 HIGH motif; other site 579405005886 dimer interface [polypeptide binding]; other site 579405005887 KMSKS motif; other site 579405005888 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 579405005889 RNA binding surface [nucleotide binding]; other site 579405005890 pyridoxamine kinase; Validated; Region: PRK05756 579405005891 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 579405005892 dimer interface [polypeptide binding]; other site 579405005893 pyridoxal binding site [chemical binding]; other site 579405005894 ATP binding site [chemical binding]; other site 579405005895 glutathionine S-transferase; Provisional; Region: PRK10542 579405005896 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 579405005897 C-terminal domain interface [polypeptide binding]; other site 579405005898 GSH binding site (G-site) [chemical binding]; other site 579405005899 dimer interface [polypeptide binding]; other site 579405005900 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 579405005901 N-terminal domain interface [polypeptide binding]; other site 579405005902 dimer interface [polypeptide binding]; other site 579405005903 substrate binding pocket (H-site) [chemical binding]; other site 579405005904 aconitate hydratase; Validated; Region: PRK09277 579405005905 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 579405005906 substrate binding site [chemical binding]; other site 579405005907 ligand binding site [chemical binding]; other site 579405005908 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 579405005909 substrate binding site [chemical binding]; other site 579405005910 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 579405005911 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 579405005912 peptide binding site [polypeptide binding]; other site 579405005913 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 579405005914 dimerization interface [polypeptide binding]; other site 579405005915 active site 579405005916 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 579405005917 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 579405005918 active site 579405005919 Predicted membrane protein [Function unknown]; Region: COG3771 579405005920 tetratricopeptide repeat protein; Provisional; Region: PRK11788 579405005921 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 579405005922 TPR motif; other site 579405005923 binding surface 579405005924 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 579405005925 active site 579405005926 dimer interface [polypeptide binding]; other site 579405005927 translation initiation factor Sui1; Validated; Region: PRK06824 579405005928 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 579405005929 putative rRNA binding site [nucleotide binding]; other site 579405005930 lipoprotein; Provisional; Region: PRK10540 579405005931 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 579405005932 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 579405005933 intersubunit interface [polypeptide binding]; other site 579405005934 active site 579405005935 Zn2+ binding site [ion binding]; other site 579405005936 2-keto-3-deoxygluconate transporter; Region: kdgT; TIGR00793 579405005937 carbon starvation protein A; Provisional; Region: PRK15015 579405005938 Carbon starvation protein CstA; Region: CstA; pfam02554 579405005939 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 579405005940 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 579405005941 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 579405005942 active site 579405005943 catalytic tetrad [active] 579405005944 exoribonuclease II; Provisional; Region: PRK05054 579405005945 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 579405005946 RNB domain; Region: RNB; pfam00773 579405005947 S1 RNA binding domain; Region: S1; pfam00575 579405005948 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 579405005949 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 579405005950 putative molybdopterin cofactor binding site [chemical binding]; other site 579405005951 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 579405005952 putative molybdopterin cofactor binding site; other site 579405005953 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405005954 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405005955 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 579405005956 dimerization interface [polypeptide binding]; other site 579405005957 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 579405005958 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 579405005959 NAD binding site [chemical binding]; other site 579405005960 homotetramer interface [polypeptide binding]; other site 579405005961 homodimer interface [polypeptide binding]; other site 579405005962 substrate binding site [chemical binding]; other site 579405005963 active site 579405005964 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 579405005965 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405005966 Walker A/P-loop; other site 579405005967 ATP binding site [chemical binding]; other site 579405005968 Q-loop/lid; other site 579405005969 ABC transporter signature motif; other site 579405005970 Walker B; other site 579405005971 D-loop; other site 579405005972 H-loop/switch region; other site 579405005973 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405005974 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 579405005975 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405005976 Walker A/P-loop; other site 579405005977 ATP binding site [chemical binding]; other site 579405005978 Q-loop/lid; other site 579405005979 ABC transporter signature motif; other site 579405005980 Walker B; other site 579405005981 D-loop; other site 579405005982 H-loop/switch region; other site 579405005983 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405005984 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 579405005985 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 579405005986 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 579405005987 dimer interface [polypeptide binding]; other site 579405005988 conserved gate region; other site 579405005989 putative PBP binding loops; other site 579405005990 ABC-ATPase subunit interface; other site 579405005991 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 579405005992 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 579405005993 dimer interface [polypeptide binding]; other site 579405005994 conserved gate region; other site 579405005995 putative PBP binding loops; other site 579405005996 ABC-ATPase subunit interface; other site 579405005997 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 579405005998 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 579405005999 peptide binding site [polypeptide binding]; other site 579405006000 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 579405006001 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405006002 dimer interface [polypeptide binding]; other site 579405006003 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 579405006004 putative CheW interface [polypeptide binding]; other site 579405006005 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 579405006006 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 579405006007 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 579405006008 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 579405006009 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 579405006010 Walker A motif; other site 579405006011 ATP binding site [chemical binding]; other site 579405006012 Walker B motif; other site 579405006013 arginine finger; other site 579405006014 phage shock protein PspA; Provisional; Region: PRK10698 579405006015 phage shock protein B; Provisional; Region: pspB; PRK09458 579405006016 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 579405006017 phage shock protein C; Region: phageshock_pspC; TIGR02978 579405006018 Predicted ATPase [General function prediction only]; Region: COG3106 579405006019 hypothetical protein; Provisional; Region: PRK05415 579405006020 Domain of unknown function (DUF697); Region: DUF697; cl12064 579405006021 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_1; cd05678 579405006022 hypothetical protein; Provisional; Region: PRK06446 579405006023 putative metal binding site [ion binding]; other site 579405006024 putative dimer interface [polypeptide binding]; other site 579405006025 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 579405006026 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 579405006027 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 579405006028 putative active site [active] 579405006029 heme pocket [chemical binding]; other site 579405006030 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 579405006031 Walker A motif; other site 579405006032 ATP binding site [chemical binding]; other site 579405006033 Walker B motif; other site 579405006034 arginine finger; other site 579405006035 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 579405006036 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 579405006037 Helix-turn-helix domain; Region: HTH_31; pfam13560 579405006038 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 579405006039 putative substrate translocation pore; other site 579405006040 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 579405006041 dimer interface [polypeptide binding]; other site 579405006042 catalytic triad [active] 579405006043 peroxidatic and resolving cysteines [active] 579405006044 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 579405006045 putative active site [active] 579405006046 Zn binding site [ion binding]; other site 579405006047 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 579405006048 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 579405006049 peptide binding site [polypeptide binding]; other site 579405006050 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 579405006051 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 579405006052 Cl binding site [ion binding]; other site 579405006053 oligomer interface [polypeptide binding]; other site 579405006054 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 579405006055 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 579405006056 Ligand Binding Site [chemical binding]; other site 579405006057 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 579405006058 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 579405006059 Domain of unknown function (DUF333); Region: DUF333; pfam03891 579405006060 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 579405006061 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 579405006062 putative ligand binding site [chemical binding]; other site 579405006063 putative NAD binding site [chemical binding]; other site 579405006064 catalytic site [active] 579405006065 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 579405006066 PAS domain; Region: PAS_9; pfam13426 579405006067 putative active site [active] 579405006068 heme pocket [chemical binding]; other site 579405006069 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405006070 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405006071 dimer interface [polypeptide binding]; other site 579405006072 putative CheW interface [polypeptide binding]; other site 579405006073 azoreductase; Reviewed; Region: PRK00170 579405006074 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 579405006075 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 579405006076 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 579405006077 ATP binding site [chemical binding]; other site 579405006078 putative Mg++ binding site [ion binding]; other site 579405006079 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 579405006080 nucleotide binding region [chemical binding]; other site 579405006081 ATP-binding site [chemical binding]; other site 579405006082 Helicase associated domain (HA2); Region: HA2; pfam04408 579405006083 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 579405006084 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 579405006085 Uncharacterized conserved protein [Function unknown]; Region: COG1556 579405006086 iron-sulfur cluster-binding protein; Region: TIGR00273 579405006087 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 579405006088 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 579405006089 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 579405006090 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 579405006091 Cysteine-rich domain; Region: CCG; pfam02754 579405006092 Cysteine-rich domain; Region: CCG; pfam02754 579405006093 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 579405006094 L-lactate permease; Region: Lactate_perm; cl00701 579405006095 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 579405006096 sensor protein RstB; Provisional; Region: PRK10604 579405006097 HAMP domain; Region: HAMP; pfam00672 579405006098 dimerization interface [polypeptide binding]; other site 579405006099 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 579405006100 dimer interface [polypeptide binding]; other site 579405006101 phosphorylation site [posttranslational modification] 579405006102 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 579405006103 ATP binding site [chemical binding]; other site 579405006104 G-X-G motif; other site 579405006105 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 579405006106 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 579405006107 active site 579405006108 phosphorylation site [posttranslational modification] 579405006109 intermolecular recognition site; other site 579405006110 dimerization interface [polypeptide binding]; other site 579405006111 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 579405006112 DNA binding site [nucleotide binding] 579405006113 putative transporter; Provisional; Region: PRK11660 579405006114 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 579405006115 Sulfate transporter family; Region: Sulfate_transp; pfam00916 579405006116 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 579405006117 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 579405006118 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 579405006119 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 579405006120 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 579405006121 putative active site pocket [active] 579405006122 dimerization interface [polypeptide binding]; other site 579405006123 putative catalytic residue [active] 579405006124 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 579405006125 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 579405006126 dimer interface [polypeptide binding]; other site 579405006127 conserved gate region; other site 579405006128 putative PBP binding loops; other site 579405006129 ABC-ATPase subunit interface; other site 579405006130 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 579405006131 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 579405006132 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 579405006133 dimer interface [polypeptide binding]; other site 579405006134 conserved gate region; other site 579405006135 ABC-ATPase subunit interface; other site 579405006136 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 579405006137 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405006138 Walker A/P-loop; other site 579405006139 ATP binding site [chemical binding]; other site 579405006140 Q-loop/lid; other site 579405006141 ABC transporter signature motif; other site 579405006142 Walker B; other site 579405006143 D-loop; other site 579405006144 H-loop/switch region; other site 579405006145 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405006146 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 579405006147 Walker A/P-loop; other site 579405006148 ATP binding site [chemical binding]; other site 579405006149 Q-loop/lid; other site 579405006150 ABC transporter signature motif; other site 579405006151 Walker B; other site 579405006152 D-loop; other site 579405006153 H-loop/switch region; other site 579405006154 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 579405006155 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 579405006156 Protein of unknown function, DUF481; Region: DUF481; pfam04338 579405006157 Acyltransferase family; Region: Acyl_transf_3; pfam01757 579405006158 transcriptional regulator NarL; Provisional; Region: PRK10651 579405006159 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 579405006160 active site 579405006161 phosphorylation site [posttranslational modification] 579405006162 intermolecular recognition site; other site 579405006163 dimerization interface [polypeptide binding]; other site 579405006164 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 579405006165 DNA binding residues [nucleotide binding] 579405006166 dimerization interface [polypeptide binding]; other site 579405006167 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 579405006168 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 579405006169 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 579405006170 dimerization interface [polypeptide binding]; other site 579405006171 Histidine kinase; Region: HisKA_3; pfam07730 579405006172 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 579405006173 ATP binding site [chemical binding]; other site 579405006174 Mg2+ binding site [ion binding]; other site 579405006175 G-X-G motif; other site 579405006176 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 579405006177 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 579405006178 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 579405006179 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 579405006180 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 579405006181 phosphate binding site [ion binding]; other site 579405006182 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 579405006183 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 579405006184 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 579405006185 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 579405006186 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 579405006187 [4Fe-4S] binding site [ion binding]; other site 579405006188 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 579405006189 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 579405006190 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 579405006191 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 579405006192 molybdopterin cofactor binding site; other site 579405006193 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 579405006194 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 579405006195 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 579405006196 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 579405006197 nudix motif; other site 579405006198 putative alcohol dehydrogenase; Provisional; Region: PRK09860 579405006199 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 579405006200 dimer interface [polypeptide binding]; other site 579405006201 active site 579405006202 metal binding site [ion binding]; metal-binding site 579405006203 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 579405006204 methionine synthase; Provisional; Region: PRK01207 579405006205 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 579405006206 substrate binding site [chemical binding]; other site 579405006207 THF binding site; other site 579405006208 zinc-binding site [ion binding]; other site 579405006209 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 579405006210 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 579405006211 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 579405006212 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 579405006213 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 579405006214 Walker A/P-loop; other site 579405006215 ATP binding site [chemical binding]; other site 579405006216 Q-loop/lid; other site 579405006217 ABC transporter signature motif; other site 579405006218 Walker B; other site 579405006219 D-loop; other site 579405006220 H-loop/switch region; other site 579405006221 TOBE domain; Region: TOBE_2; pfam08402 579405006222 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 579405006223 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405006224 DNA-binding site [nucleotide binding]; DNA binding site 579405006225 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 579405006226 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405006227 homodimer interface [polypeptide binding]; other site 579405006228 catalytic residue [active] 579405006229 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 579405006230 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 579405006231 inhibitor-cofactor binding pocket; inhibition site 579405006232 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405006233 catalytic residue [active] 579405006234 succinic semialdehyde dehydrogenase; Region: PLN02278 579405006235 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 579405006236 tetramerization interface [polypeptide binding]; other site 579405006237 NAD(P) binding site [chemical binding]; other site 579405006238 catalytic residues [active] 579405006239 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 579405006240 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 579405006241 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 579405006242 dimer interface [polypeptide binding]; other site 579405006243 conserved gate region; other site 579405006244 putative PBP binding loops; other site 579405006245 ABC-ATPase subunit interface; other site 579405006246 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 579405006247 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 579405006248 dimer interface [polypeptide binding]; other site 579405006249 conserved gate region; other site 579405006250 putative PBP binding loops; other site 579405006251 ABC-ATPase subunit interface; other site 579405006252 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 579405006253 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 579405006254 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 579405006255 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 579405006256 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 579405006257 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 579405006258 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 579405006259 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 579405006260 active site 579405006261 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 579405006262 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 579405006263 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 579405006264 active site 579405006265 motif I; other site 579405006266 motif II; other site 579405006267 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 579405006268 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 579405006269 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 579405006270 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405006271 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405006272 The C-terminal substrate-domain of LysR-type transcriptional regulator, OccR, involved in the catabolism of octopine, contains the type 2 periplasmic binding fold; Region: PBP2_OccR; cd08457 579405006273 putative dimerization interface [polypeptide binding]; other site 579405006274 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 579405006275 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 579405006276 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 579405006277 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 579405006278 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 579405006279 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 579405006280 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 579405006281 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 579405006282 dimer interface [polypeptide binding]; other site 579405006283 conserved gate region; other site 579405006284 putative PBP binding loops; other site 579405006285 ABC-ATPase subunit interface; other site 579405006286 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 579405006287 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 579405006288 putative PBP binding loops; other site 579405006289 dimer interface [polypeptide binding]; other site 579405006290 ABC-ATPase subunit interface; other site 579405006291 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 579405006292 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 579405006293 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 579405006294 active site 579405006295 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 579405006296 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405006297 Walker A/P-loop; other site 579405006298 ATP binding site [chemical binding]; other site 579405006299 Q-loop/lid; other site 579405006300 ABC transporter signature motif; other site 579405006301 Walker B; other site 579405006302 D-loop; other site 579405006303 H-loop/switch region; other site 579405006304 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405006305 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 579405006306 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405006307 Walker A/P-loop; other site 579405006308 ATP binding site [chemical binding]; other site 579405006309 Q-loop/lid; other site 579405006310 ABC transporter signature motif; other site 579405006311 Walker B; other site 579405006312 D-loop; other site 579405006313 H-loop/switch region; other site 579405006314 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 579405006315 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 579405006316 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_2; cd08498 579405006317 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 579405006318 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 579405006319 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 579405006320 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 579405006321 dimerization interface [polypeptide binding]; other site 579405006322 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405006323 dimer interface [polypeptide binding]; other site 579405006324 putative CheW interface [polypeptide binding]; other site 579405006325 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 579405006326 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_13; cd08517 579405006327 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 579405006328 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 579405006329 dimer interface [polypeptide binding]; other site 579405006330 conserved gate region; other site 579405006331 putative PBP binding loops; other site 579405006332 ABC-ATPase subunit interface; other site 579405006333 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 579405006334 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 579405006335 dimer interface [polypeptide binding]; other site 579405006336 conserved gate region; other site 579405006337 putative PBP binding loops; other site 579405006338 ABC-ATPase subunit interface; other site 579405006339 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 579405006340 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405006341 Walker A/P-loop; other site 579405006342 ATP binding site [chemical binding]; other site 579405006343 Q-loop/lid; other site 579405006344 ABC transporter signature motif; other site 579405006345 Walker B; other site 579405006346 D-loop; other site 579405006347 H-loop/switch region; other site 579405006348 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405006349 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405006350 Walker A/P-loop; other site 579405006351 ATP binding site [chemical binding]; other site 579405006352 Q-loop/lid; other site 579405006353 ABC transporter signature motif; other site 579405006354 Walker B; other site 579405006355 D-loop; other site 579405006356 H-loop/switch region; other site 579405006357 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405006358 short chain dehydrogenase; Provisional; Region: PRK08339 579405006359 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 579405006360 putative NAD(P) binding site [chemical binding]; other site 579405006361 putative active site [active] 579405006362 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 579405006363 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 579405006364 metal binding site [ion binding]; metal-binding site 579405006365 putative dimer interface [polypeptide binding]; other site 579405006366 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 579405006367 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 579405006368 hydroxyglutarate oxidase; Provisional; Region: PRK11728 579405006369 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 579405006370 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 579405006371 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 579405006372 dimer interface [polypeptide binding]; other site 579405006373 active site 579405006374 catalytic residue [active] 579405006375 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 579405006376 dimerization interface [polypeptide binding]; other site 579405006377 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405006378 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405006379 dimer interface [polypeptide binding]; other site 579405006380 putative CheW interface [polypeptide binding]; other site 579405006381 microcin B17 transporter; Reviewed; Region: PRK11098 579405006382 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 579405006383 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 579405006384 putative C-terminal domain interface [polypeptide binding]; other site 579405006385 putative GSH binding site (G-site) [chemical binding]; other site 579405006386 putative dimer interface [polypeptide binding]; other site 579405006387 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 579405006388 putative N-terminal domain interface [polypeptide binding]; other site 579405006389 putative dimer interface [polypeptide binding]; other site 579405006390 putative substrate binding pocket (H-site) [chemical binding]; other site 579405006391 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 579405006392 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405006393 Coenzyme A binding pocket [chemical binding]; other site 579405006394 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 579405006395 beta-galactosidase; Region: BGL; TIGR03356 579405006396 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 579405006397 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 579405006398 active site turn [active] 579405006399 phosphorylation site [posttranslational modification] 579405006400 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 579405006401 Transcriptional regulators [Transcription]; Region: PurR; COG1609 579405006402 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 579405006403 DNA binding site [nucleotide binding] 579405006404 domain linker motif; other site 579405006405 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 579405006406 dimerization interface (closed form) [polypeptide binding]; other site 579405006407 ligand binding site [chemical binding]; other site 579405006408 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 579405006409 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 579405006410 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 579405006411 Walker A/P-loop; other site 579405006412 ATP binding site [chemical binding]; other site 579405006413 Q-loop/lid; other site 579405006414 ABC transporter signature motif; other site 579405006415 Walker B; other site 579405006416 D-loop; other site 579405006417 H-loop/switch region; other site 579405006418 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 579405006419 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 579405006420 Walker A/P-loop; other site 579405006421 ATP binding site [chemical binding]; other site 579405006422 Q-loop/lid; other site 579405006423 ABC transporter signature motif; other site 579405006424 Walker B; other site 579405006425 D-loop; other site 579405006426 H-loop/switch region; other site 579405006427 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 579405006428 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 579405006429 TM-ABC transporter signature motif; other site 579405006430 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 579405006431 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 579405006432 TM-ABC transporter signature motif; other site 579405006433 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 579405006434 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 579405006435 ligand binding site [chemical binding]; other site 579405006436 Transcriptional regulators [Transcription]; Region: GntR; COG1802 579405006437 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405006438 DNA-binding site [nucleotide binding]; DNA binding site 579405006439 FCD domain; Region: FCD; pfam07729 579405006440 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 579405006441 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 579405006442 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 579405006443 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405006444 DNA-binding site [nucleotide binding]; DNA binding site 579405006445 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 579405006446 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405006447 homodimer interface [polypeptide binding]; other site 579405006448 catalytic residue [active] 579405006449 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 579405006450 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_16; cd08502 579405006451 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 579405006452 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 579405006453 dimer interface [polypeptide binding]; other site 579405006454 conserved gate region; other site 579405006455 ABC-ATPase subunit interface; other site 579405006456 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 579405006457 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 579405006458 dimer interface [polypeptide binding]; other site 579405006459 conserved gate region; other site 579405006460 putative PBP binding loops; other site 579405006461 ABC-ATPase subunit interface; other site 579405006462 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 579405006463 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405006464 Walker A/P-loop; other site 579405006465 ATP binding site [chemical binding]; other site 579405006466 Q-loop/lid; other site 579405006467 ABC transporter signature motif; other site 579405006468 Walker B; other site 579405006469 D-loop; other site 579405006470 H-loop/switch region; other site 579405006471 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405006472 Walker A/P-loop; other site 579405006473 ATP binding site [chemical binding]; other site 579405006474 Q-loop/lid; other site 579405006475 ABC transporter signature motif; other site 579405006476 Walker B; other site 579405006477 D-loop; other site 579405006478 H-loop/switch region; other site 579405006479 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405006480 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 579405006481 Amidase; Region: Amidase; cl11426 579405006482 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 579405006483 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 579405006484 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 579405006485 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 579405006486 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 579405006487 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 579405006488 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 579405006489 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 579405006490 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 579405006491 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 579405006492 conserved cys residue [active] 579405006493 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405006494 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 579405006495 Major Facilitator Superfamily; Region: MFS_1; pfam07690 579405006496 putative substrate translocation pore; other site 579405006497 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 579405006498 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 579405006499 ATP binding site [chemical binding]; other site 579405006500 Mg++ binding site [ion binding]; other site 579405006501 motif III; other site 579405006502 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 579405006503 nucleotide binding region [chemical binding]; other site 579405006504 ATP-binding site [chemical binding]; other site 579405006505 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 579405006506 putative RNA binding site [nucleotide binding]; other site 579405006507 GTP-binding protein YchF; Reviewed; Region: PRK09601 579405006508 YchF GTPase; Region: YchF; cd01900 579405006509 G1 box; other site 579405006510 GTP/Mg2+ binding site [chemical binding]; other site 579405006511 Switch I region; other site 579405006512 G2 box; other site 579405006513 Switch II region; other site 579405006514 G3 box; other site 579405006515 G4 box; other site 579405006516 G5 box; other site 579405006517 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 579405006518 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 579405006519 putative active site [active] 579405006520 catalytic residue [active] 579405006521 hypothetical protein; Provisional; Region: PRK10692 579405006522 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 579405006523 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 579405006524 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 579405006525 active site 579405006526 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 579405006527 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 579405006528 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 579405006529 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 579405006530 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 579405006531 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 579405006532 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 579405006533 tRNA; other site 579405006534 putative tRNA binding site [nucleotide binding]; other site 579405006535 putative NADP binding site [chemical binding]; other site 579405006536 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 579405006537 peptide chain release factor 1; Validated; Region: prfA; PRK00591 579405006538 This domain is found in peptide chain release factors; Region: PCRF; smart00937 579405006539 RF-1 domain; Region: RF-1; pfam00472 579405006540 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 579405006541 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 579405006542 hypothetical protein; Provisional; Region: PRK10941 579405006543 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 579405006544 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 579405006545 binding surface 579405006546 TPR motif; other site 579405006547 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 579405006548 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 579405006549 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 579405006550 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 579405006551 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 579405006552 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 579405006553 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 579405006554 ligand binding site [chemical binding]; other site 579405006555 homodimer interface [polypeptide binding]; other site 579405006556 NAD(P) binding site [chemical binding]; other site 579405006557 trimer interface B [polypeptide binding]; other site 579405006558 trimer interface A [polypeptide binding]; other site 579405006559 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 579405006560 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 579405006561 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 579405006562 universal stress protein UspE; Provisional; Region: PRK11175 579405006563 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 579405006564 Ligand Binding Site [chemical binding]; other site 579405006565 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 579405006566 Ligand Binding Site [chemical binding]; other site 579405006567 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 579405006568 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 579405006569 ligand binding site [chemical binding]; other site 579405006570 flexible hinge region; other site 579405006571 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 579405006572 putative switch regulator; other site 579405006573 non-specific DNA interactions [nucleotide binding]; other site 579405006574 DNA binding site [nucleotide binding] 579405006575 sequence specific DNA binding site [nucleotide binding]; other site 579405006576 putative cAMP binding site [chemical binding]; other site 579405006577 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 579405006578 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 579405006579 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 579405006580 DNA binding site [nucleotide binding] 579405006581 active site 579405006582 FIST N domain; Region: FIST; smart00897 579405006583 FIST C domain; Region: FIST_C; pfam10442 579405006584 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405006585 dimer interface [polypeptide binding]; other site 579405006586 putative CheW interface [polypeptide binding]; other site 579405006587 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 579405006588 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 579405006589 transcriptional regulator MirA; Provisional; Region: PRK15043 579405006590 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 579405006591 DNA binding residues [nucleotide binding] 579405006592 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 579405006593 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 579405006594 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 579405006595 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 579405006596 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405006597 Walker A/P-loop; other site 579405006598 ATP binding site [chemical binding]; other site 579405006599 Q-loop/lid; other site 579405006600 ABC transporter signature motif; other site 579405006601 Walker B; other site 579405006602 D-loop; other site 579405006603 H-loop/switch region; other site 579405006604 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 579405006605 ABC-ATPase subunit interface; other site 579405006606 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 579405006607 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 579405006608 dimer interface [polypeptide binding]; other site 579405006609 conserved gate region; other site 579405006610 putative PBP binding loops; other site 579405006611 ABC-ATPase subunit interface; other site 579405006612 hypothetical protein; Provisional; Region: PRK11622 579405006613 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 579405006614 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 579405006615 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 579405006616 active site 579405006617 catalytic site [active] 579405006618 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 579405006619 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 579405006620 active site 579405006621 Ferritin-like; Region: Ferritin-like; pfam12902 579405006622 SnoaL-like domain; Region: SnoaL_2; pfam12680 579405006623 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 579405006624 Putative bacterial virulence factor; Region: Virul_Fac; pfam10139 579405006625 Virulence factor SrfB; Region: SrfB; pfam07520 579405006626 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 579405006627 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 579405006628 NADP binding site [chemical binding]; other site 579405006629 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 579405006630 potassium uptake protein; Region: kup; TIGR00794 579405006631 K+ potassium transporter; Region: K_trans; pfam02705 579405006632 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 579405006633 Cellulose-binding domain, chitinase and related proteins; Region: CBD_like; cd12204 579405006634 aromatic chitin/cellulose binding site residues [chemical binding]; other site 579405006635 ligand binding site [chemical binding]; other site 579405006636 Right handed beta helix region; Region: Beta_helix; pfam13229 579405006637 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK03669 579405006638 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 579405006639 active site 579405006640 motif I; other site 579405006641 motif II; other site 579405006642 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 579405006643 Methyltransferase domain; Region: Methyltransf_31; pfam13847 579405006644 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 579405006645 S-adenosylmethionine binding site [chemical binding]; other site 579405006646 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 579405006647 Cytochrome P450; Region: p450; cl12078 579405006648 malonic semialdehyde reductase; Provisional; Region: PRK10538 579405006649 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 579405006650 putative NAD(P) binding site [chemical binding]; other site 579405006651 homodimer interface [polypeptide binding]; other site 579405006652 homotetramer interface [polypeptide binding]; other site 579405006653 active site 579405006654 hypothetical protein; Provisional; Region: PRK13659 579405006655 putative dithiobiotin synthetase; Provisional; Region: PRK12374 579405006656 AAA domain; Region: AAA_26; pfam13500 579405006657 MarR family; Region: MarR_2; cl17246 579405006658 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 579405006659 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 579405006660 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 579405006661 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405006662 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 579405006663 dimerization interface [polypeptide binding]; other site 579405006664 substrate binding pocket [chemical binding]; other site 579405006665 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 579405006666 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 579405006667 putative substrate translocation pore; other site 579405006668 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 579405006669 fumarate hydratase; Reviewed; Region: fumC; PRK00485 579405006670 Class II fumarases; Region: Fumarase_classII; cd01362 579405006671 active site 579405006672 tetramer interface [polypeptide binding]; other site 579405006673 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 579405006674 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 579405006675 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 579405006676 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 579405006677 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 579405006678 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 579405006679 adenosine deaminase; Provisional; Region: PRK09358 579405006680 active site 579405006681 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 579405006682 SnoaL-like domain; Region: SnoaL_3; pfam13474 579405006683 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 579405006684 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 579405006685 Uncharacterized protein family (UPF0257); Region: UPF0257; cl14672 579405006686 putative oxidoreductase; Provisional; Region: PRK11579 579405006687 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 579405006688 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 579405006689 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 579405006690 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 579405006691 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405006692 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405006693 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 579405006694 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 579405006695 TM-ABC transporter signature motif; other site 579405006696 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 579405006697 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405006698 Walker A/P-loop; other site 579405006699 ATP binding site [chemical binding]; other site 579405006700 Q-loop/lid; other site 579405006701 ABC transporter signature motif; other site 579405006702 Walker B; other site 579405006703 D-loop; other site 579405006704 H-loop/switch region; other site 579405006705 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 579405006706 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 579405006707 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 579405006708 ligand binding site [chemical binding]; other site 579405006709 ribulokinase; Provisional; Region: PRK04123 579405006710 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 579405006711 N- and C-terminal domain interface [polypeptide binding]; other site 579405006712 active site 579405006713 MgATP binding site [chemical binding]; other site 579405006714 catalytic site [active] 579405006715 metal binding site [ion binding]; metal-binding site 579405006716 carbohydrate binding site [chemical binding]; other site 579405006717 homodimer interface [polypeptide binding]; other site 579405006718 L-arabinose isomerase; Provisional; Region: PRK02929 579405006719 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 579405006720 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 579405006721 trimer interface [polypeptide binding]; other site 579405006722 putative substrate binding site [chemical binding]; other site 579405006723 putative metal binding site [ion binding]; other site 579405006724 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 579405006725 electron transport complex protein RsxA; Provisional; Region: PRK05151 579405006726 ferredoxin; Provisional; Region: PRK08764 579405006727 Putative Fe-S cluster; Region: FeS; pfam04060 579405006728 4Fe-4S binding domain; Region: Fer4; pfam00037 579405006729 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 579405006730 SLBB domain; Region: SLBB; pfam10531 579405006731 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 579405006732 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 579405006733 electron transport complex protein RnfG; Validated; Region: PRK01908 579405006734 electron transport complex RsxE subunit; Provisional; Region: PRK12405 579405006735 endonuclease III; Provisional; Region: PRK10702 579405006736 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 579405006737 minor groove reading motif; other site 579405006738 helix-hairpin-helix signature motif; other site 579405006739 substrate binding pocket [chemical binding]; other site 579405006740 active site 579405006741 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 579405006742 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 579405006743 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405006744 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 579405006745 substrate binding site [chemical binding]; other site 579405006746 putative dimerization interface [polypeptide binding]; other site 579405006747 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 579405006748 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 579405006749 active site 579405006750 interdomain interaction site; other site 579405006751 putative metal-binding site [ion binding]; other site 579405006752 nucleotide binding site [chemical binding]; other site 579405006753 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 579405006754 domain I; other site 579405006755 DNA binding groove [nucleotide binding] 579405006756 phosphate binding site [ion binding]; other site 579405006757 domain II; other site 579405006758 domain III; other site 579405006759 nucleotide binding site [chemical binding]; other site 579405006760 catalytic site [active] 579405006761 domain IV; other site 579405006762 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 579405006763 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 579405006764 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 579405006765 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 579405006766 hypothetical protein; Provisional; Region: PRK11037 579405006767 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 579405006768 putative inner membrane peptidase; Provisional; Region: PRK11778 579405006769 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 579405006770 tandem repeat interface [polypeptide binding]; other site 579405006771 oligomer interface [polypeptide binding]; other site 579405006772 active site residues [active] 579405006773 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 579405006774 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 579405006775 NAD(P) binding site [chemical binding]; other site 579405006776 active site 579405006777 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 579405006778 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 579405006779 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 579405006780 homodimer interface [polypeptide binding]; other site 579405006781 Walker A motif; other site 579405006782 ATP binding site [chemical binding]; other site 579405006783 hydroxycobalamin binding site [chemical binding]; other site 579405006784 Walker B motif; other site 579405006785 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 579405006786 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 579405006787 RNA binding surface [nucleotide binding]; other site 579405006788 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 579405006789 probable active site [active] 579405006790 hypothetical protein; Provisional; Region: PRK11630 579405006791 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 579405006792 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 579405006793 active site 579405006794 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 579405006795 anthranilate synthase component I; Provisional; Region: PRK13564 579405006796 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 579405006797 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 579405006798 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 579405006799 Glutamine amidotransferase class-I; Region: GATase; pfam00117 579405006800 glutamine binding [chemical binding]; other site 579405006801 catalytic triad [active] 579405006802 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 579405006803 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 579405006804 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 579405006805 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 579405006806 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 579405006807 active site 579405006808 ribulose/triose binding site [chemical binding]; other site 579405006809 phosphate binding site [ion binding]; other site 579405006810 substrate (anthranilate) binding pocket [chemical binding]; other site 579405006811 product (indole) binding pocket [chemical binding]; other site 579405006812 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 579405006813 active site 579405006814 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 579405006815 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 579405006816 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405006817 catalytic residue [active] 579405006818 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 579405006819 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 579405006820 substrate binding site [chemical binding]; other site 579405006821 active site 579405006822 catalytic residues [active] 579405006823 heterodimer interface [polypeptide binding]; other site 579405006824 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 579405006825 outer membrane protein W; Provisional; Region: PRK10959 579405006826 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 579405006827 hypothetical protein; Provisional; Region: PRK02868 579405006828 intracellular septation protein A; Reviewed; Region: PRK00259 579405006829 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 579405006830 transport protein TonB; Provisional; Region: PRK10819 579405006831 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 579405006832 YciI-like protein; Reviewed; Region: PRK11370 579405006833 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 579405006834 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 579405006835 dimer interface [polypeptide binding]; other site 579405006836 ligand binding site [chemical binding]; other site 579405006837 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 579405006838 dimerization interface [polypeptide binding]; other site 579405006839 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405006840 dimer interface [polypeptide binding]; other site 579405006841 putative CheW interface [polypeptide binding]; other site 579405006842 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 579405006843 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 579405006844 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 579405006845 putative active site [active] 579405006846 catalytic site [active] 579405006847 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 579405006848 putative active site [active] 579405006849 catalytic site [active] 579405006850 dsDNA-mimic protein; Reviewed; Region: PRK05094 579405006851 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 579405006852 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405006853 Walker A/P-loop; other site 579405006854 ATP binding site [chemical binding]; other site 579405006855 Q-loop/lid; other site 579405006856 ABC transporter signature motif; other site 579405006857 Walker B; other site 579405006858 D-loop; other site 579405006859 H-loop/switch region; other site 579405006860 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 579405006861 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 579405006862 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405006863 Walker A/P-loop; other site 579405006864 ATP binding site [chemical binding]; other site 579405006865 Q-loop/lid; other site 579405006866 ABC transporter signature motif; other site 579405006867 Walker B; other site 579405006868 D-loop; other site 579405006869 H-loop/switch region; other site 579405006870 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 579405006871 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 579405006872 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 579405006873 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 579405006874 dimer interface [polypeptide binding]; other site 579405006875 conserved gate region; other site 579405006876 putative PBP binding loops; other site 579405006877 ABC-ATPase subunit interface; other site 579405006878 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 579405006879 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 579405006880 dimer interface [polypeptide binding]; other site 579405006881 conserved gate region; other site 579405006882 putative PBP binding loops; other site 579405006883 ABC-ATPase subunit interface; other site 579405006884 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 579405006885 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 579405006886 peptide binding site [polypeptide binding]; other site 579405006887 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 579405006888 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 579405006889 putative catalytic cysteine [active] 579405006890 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 579405006891 putative active site [active] 579405006892 metal binding site [ion binding]; metal-binding site 579405006893 thymidine kinase; Provisional; Region: PRK04296 579405006894 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 579405006895 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 579405006896 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 579405006897 active site 579405006898 tetramer interface; other site 579405006899 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 579405006900 active site 579405006901 response regulator of RpoS; Provisional; Region: PRK10693 579405006902 phosphorylation site [posttranslational modification] 579405006903 intermolecular recognition site; other site 579405006904 dimerization interface [polypeptide binding]; other site 579405006905 hypothetical protein; Provisional; Region: PRK10279 579405006906 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 579405006907 active site 579405006908 nucleophile elbow; other site 579405006909 SEC-C motif; Region: SEC-C; pfam02810 579405006910 hypothetical protein; Provisional; Region: PRK04233 579405006911 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 579405006912 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 579405006913 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 579405006914 putative active site [active] 579405006915 putative substrate binding site [chemical binding]; other site 579405006916 putative cosubstrate binding site; other site 579405006917 catalytic site [active] 579405006918 Predicted membrane protein [Function unknown]; Region: COG2860 579405006919 UPF0126 domain; Region: UPF0126; pfam03458 579405006920 UPF0126 domain; Region: UPF0126; pfam03458 579405006921 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 579405006922 putative catalytic site [active] 579405006923 putative phosphate binding site [ion binding]; other site 579405006924 active site 579405006925 metal binding site A [ion binding]; metal-binding site 579405006926 DNA binding site [nucleotide binding] 579405006927 putative AP binding site [nucleotide binding]; other site 579405006928 putative metal binding site B [ion binding]; other site 579405006929 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 579405006930 DNA topoisomerase III; Provisional; Region: PRK07726 579405006931 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 579405006932 active site 579405006933 putative interdomain interaction site [polypeptide binding]; other site 579405006934 putative metal-binding site [ion binding]; other site 579405006935 putative nucleotide binding site [chemical binding]; other site 579405006936 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 579405006937 domain I; other site 579405006938 DNA binding groove [nucleotide binding] 579405006939 phosphate binding site [ion binding]; other site 579405006940 domain II; other site 579405006941 domain III; other site 579405006942 nucleotide binding site [chemical binding]; other site 579405006943 catalytic site [active] 579405006944 domain IV; other site 579405006945 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 579405006946 putative FMN binding site [chemical binding]; other site 579405006947 protease 4; Provisional; Region: PRK10949 579405006948 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 579405006949 tandem repeat interface [polypeptide binding]; other site 579405006950 oligomer interface [polypeptide binding]; other site 579405006951 active site residues [active] 579405006952 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 579405006953 tandem repeat interface [polypeptide binding]; other site 579405006954 oligomer interface [polypeptide binding]; other site 579405006955 active site residues [active] 579405006956 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 579405006957 active site 579405006958 homodimer interface [polypeptide binding]; other site 579405006959 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 579405006960 Isochorismatase family; Region: Isochorismatase; pfam00857 579405006961 catalytic triad [active] 579405006962 metal binding site [ion binding]; metal-binding site 579405006963 conserved cis-peptide bond; other site 579405006964 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 579405006965 methionine sulfoxide reductase B; Provisional; Region: PRK00222 579405006966 SelR domain; Region: SelR; pfam01641 579405006967 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 579405006968 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 579405006969 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 579405006970 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 579405006971 active site 579405006972 phosphate binding residues; other site 579405006973 catalytic residues [active] 579405006974 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 579405006975 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 579405006976 active site 579405006977 catalytic tetrad [active] 579405006978 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 579405006979 PrkA family serine protein kinase; Provisional; Region: PRK15455 579405006980 AAA ATPase domain; Region: AAA_16; pfam13191 579405006981 Walker A motif; other site 579405006982 ATP binding site [chemical binding]; other site 579405006983 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 579405006984 hypothetical protein; Provisional; Region: PRK05325 579405006985 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 579405006986 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 579405006987 active site 579405006988 metal binding site [ion binding]; metal-binding site 579405006989 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 579405006990 hydroxyglutarate oxidase; Provisional; Region: PRK11728 579405006991 SpoVR family protein; Provisional; Region: PRK11767 579405006992 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 579405006993 fatty acid metabolism regulator; Provisional; Region: PRK04984 579405006994 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405006995 DNA-binding site [nucleotide binding]; DNA binding site 579405006996 FadR C-terminal domain; Region: FadR_C; pfam07840 579405006997 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 579405006998 disulfide bond formation protein B; Provisional; Region: PRK01749 579405006999 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 579405007000 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 579405007001 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; pfam08845 579405007002 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 579405007003 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 579405007004 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK01287 579405007005 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 579405007006 active site 579405007007 DNA binding site [nucleotide binding] 579405007008 Int/Topo IB signature motif; other site 579405007009 CHC2 zinc finger; Region: zf-CHC2; cl17510 579405007010 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 579405007011 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 579405007012 active site 579405007013 metal binding site [ion binding]; metal-binding site 579405007014 interdomain interaction site; other site 579405007015 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 579405007016 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 579405007017 non-specific DNA binding site [nucleotide binding]; other site 579405007018 salt bridge; other site 579405007019 sequence-specific DNA binding site [nucleotide binding]; other site 579405007020 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; pfam08845 579405007021 haemagglutination activity domain; Region: Haemagg_act; pfam05860 579405007022 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 579405007023 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 579405007024 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 579405007025 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 579405007026 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 579405007027 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 579405007028 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 579405007029 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 579405007030 hypothetical protein; Provisional; Region: PRK05170 579405007031 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 579405007032 hypothetical protein; Provisional; Region: PRK10691 579405007033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 579405007034 septum formation inhibitor; Reviewed; Region: minC; PRK03511 579405007035 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 579405007036 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 579405007037 cell division inhibitor MinD; Provisional; Region: PRK10818 579405007038 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 579405007039 Switch I; other site 579405007040 Switch II; other site 579405007041 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 579405007042 ribonuclease D; Provisional; Region: PRK10829 579405007043 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 579405007044 catalytic site [active] 579405007045 putative active site [active] 579405007046 putative substrate binding site [chemical binding]; other site 579405007047 HRDC domain; Region: HRDC; pfam00570 579405007048 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 579405007049 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 579405007050 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 579405007051 acyl-activating enzyme (AAE) consensus motif; other site 579405007052 putative AMP binding site [chemical binding]; other site 579405007053 putative active site [active] 579405007054 putative CoA binding site [chemical binding]; other site 579405007055 Starvation-inducible outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: Slp; COG3065 579405007056 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 579405007057 Glycoprotease family; Region: Peptidase_M22; pfam00814 579405007058 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 579405007059 DEAD/DEAH box helicase; Region: DEAD; pfam00270 579405007060 DEAD_2; Region: DEAD_2; pfam06733 579405007061 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 579405007062 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 579405007063 homotrimer interaction site [polypeptide binding]; other site 579405007064 putative active site [active] 579405007065 hypothetical protein; Provisional; Region: PRK05114 579405007066 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 579405007067 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 579405007068 chorismate binding enzyme; Region: Chorismate_bind; cl10555 579405007069 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 579405007070 putative active site [active] 579405007071 putative CoA binding site [chemical binding]; other site 579405007072 nudix motif; other site 579405007073 metal binding site [ion binding]; metal-binding site 579405007074 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 579405007075 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 579405007076 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 579405007077 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 579405007078 FOG: CBS domain [General function prediction only]; Region: COG0517 579405007079 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 579405007080 Transporter associated domain; Region: CorC_HlyC; smart01091 579405007081 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 579405007082 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 579405007083 active pocket/dimerization site; other site 579405007084 active site 579405007085 phosphorylation site [posttranslational modification] 579405007086 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 579405007087 active site 579405007088 phosphorylation site [posttranslational modification] 579405007089 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 579405007090 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 579405007091 hypothetical protein; Provisional; Region: PRK02913 579405007092 hypothetical protein; Provisional; Region: PRK11469 579405007093 Domain of unknown function DUF; Region: DUF204; pfam02659 579405007094 Domain of unknown function DUF; Region: DUF204; pfam02659 579405007095 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 579405007096 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 579405007097 S-adenosylmethionine binding site [chemical binding]; other site 579405007098 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 579405007099 DNA-binding site [nucleotide binding]; DNA binding site 579405007100 RNA-binding motif; other site 579405007101 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3001 579405007102 Phosphotransferase enzyme family; Region: APH; pfam01636 579405007103 YniB-like protein; Region: YniB; pfam14002 579405007104 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 579405007105 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 579405007106 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 579405007107 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 579405007108 NADP binding site [chemical binding]; other site 579405007109 homodimer interface [polypeptide binding]; other site 579405007110 active site 579405007111 Periplasmic pectate lyase; Region: Pectate_lyase_2; pfam06917 579405007112 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 579405007113 dimer interface [polypeptide binding]; other site 579405007114 conserved gate region; other site 579405007115 putative PBP binding loops; other site 579405007116 ABC-ATPase subunit interface; other site 579405007117 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 579405007118 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 579405007119 dimer interface [polypeptide binding]; other site 579405007120 conserved gate region; other site 579405007121 putative PBP binding loops; other site 579405007122 ABC-ATPase subunit interface; other site 579405007123 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 579405007124 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 579405007125 Walker A/P-loop; other site 579405007126 ATP binding site [chemical binding]; other site 579405007127 Q-loop/lid; other site 579405007128 ABC transporter signature motif; other site 579405007129 Walker B; other site 579405007130 D-loop; other site 579405007131 H-loop/switch region; other site 579405007132 TOBE domain; Region: TOBE_2; pfam08402 579405007133 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 579405007134 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 579405007135 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; pfam06178 579405007136 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 579405007137 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 579405007138 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 579405007139 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 579405007140 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 579405007141 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 579405007142 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 579405007143 homodimer interface [polypeptide binding]; other site 579405007144 NAD binding pocket [chemical binding]; other site 579405007145 ATP binding pocket [chemical binding]; other site 579405007146 Mg binding site [ion binding]; other site 579405007147 active-site loop [active] 579405007148 aromatic amino acid exporter; Provisional; Region: PRK11689 579405007149 EamA-like transporter family; Region: EamA; pfam00892 579405007150 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 579405007151 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 579405007152 IHF dimer interface [polypeptide binding]; other site 579405007153 IHF - DNA interface [nucleotide binding]; other site 579405007154 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 579405007155 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 579405007156 putative tRNA-binding site [nucleotide binding]; other site 579405007157 B3/4 domain; Region: B3_4; pfam03483 579405007158 tRNA synthetase B5 domain; Region: B5; smart00874 579405007159 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 579405007160 dimer interface [polypeptide binding]; other site 579405007161 motif 1; other site 579405007162 motif 3; other site 579405007163 motif 2; other site 579405007164 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 579405007165 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 579405007166 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 579405007167 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 579405007168 dimer interface [polypeptide binding]; other site 579405007169 motif 1; other site 579405007170 active site 579405007171 motif 2; other site 579405007172 motif 3; other site 579405007173 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 579405007174 23S rRNA binding site [nucleotide binding]; other site 579405007175 L21 binding site [polypeptide binding]; other site 579405007176 L13 binding site [polypeptide binding]; other site 579405007177 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 579405007178 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 579405007179 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 579405007180 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 579405007181 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 579405007182 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 579405007183 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 579405007184 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 579405007185 active site 579405007186 dimer interface [polypeptide binding]; other site 579405007187 motif 1; other site 579405007188 motif 2; other site 579405007189 motif 3; other site 579405007190 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 579405007191 anticodon binding site; other site 579405007192 YebO-like protein; Region: YebO; pfam13974 579405007193 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 579405007194 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 579405007195 dimerization interface [polypeptide binding]; other site 579405007196 putative Zn2+ binding site [ion binding]; other site 579405007197 putative DNA binding site [nucleotide binding]; other site 579405007198 Bacterial transcriptional regulator; Region: IclR; pfam01614 579405007199 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 579405007200 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 579405007201 heat shock protein HtpX; Provisional; Region: PRK05457 579405007202 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 579405007203 GAF domain; Region: GAF; pfam01590 579405007204 PAS domain S-box; Region: sensory_box; TIGR00229 579405007205 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 579405007206 putative active site [active] 579405007207 heme pocket [chemical binding]; other site 579405007208 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 579405007209 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 579405007210 metal binding site [ion binding]; metal-binding site 579405007211 active site 579405007212 I-site; other site 579405007213 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 579405007214 isocitrate dehydrogenase; Validated; Region: PRK07362 579405007215 isocitrate dehydrogenase; Reviewed; Region: PRK07006 579405007216 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 579405007217 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 579405007218 active site 579405007219 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 579405007220 nudix motif; other site 579405007221 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 579405007222 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 579405007223 putative lysogenization regulator; Reviewed; Region: PRK00218 579405007224 adenylosuccinate lyase; Provisional; Region: PRK09285 579405007225 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 579405007226 tetramer interface [polypeptide binding]; other site 579405007227 active site 579405007228 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 579405007229 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 579405007230 active site 579405007231 phosphorylation site [posttranslational modification] 579405007232 intermolecular recognition site; other site 579405007233 dimerization interface [polypeptide binding]; other site 579405007234 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 579405007235 DNA binding site [nucleotide binding] 579405007236 sensor protein PhoQ; Provisional; Region: PRK10815 579405007237 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 579405007238 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 579405007239 dimerization interface [polypeptide binding]; other site 579405007240 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 579405007241 dimer interface [polypeptide binding]; other site 579405007242 phosphorylation site [posttranslational modification] 579405007243 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 579405007244 ATP binding site [chemical binding]; other site 579405007245 Mg2+ binding site [ion binding]; other site 579405007246 G-X-G motif; other site 579405007247 Uncharacterized conserved protein [Function unknown]; Region: COG2850 579405007248 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 579405007249 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 579405007250 metal binding site [ion binding]; metal-binding site 579405007251 dimer interface [polypeptide binding]; other site 579405007252 FeoC like transcriptional regulator; Region: FeoC; pfam09012 579405007253 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 579405007254 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 579405007255 G1 box; other site 579405007256 GTP/Mg2+ binding site [chemical binding]; other site 579405007257 Switch I region; other site 579405007258 G2 box; other site 579405007259 G3 box; other site 579405007260 Switch II region; other site 579405007261 G4 box; other site 579405007262 G5 box; other site 579405007263 Nucleoside recognition; Region: Gate; pfam07670 579405007264 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 579405007265 Nucleoside recognition; Region: Gate; pfam07670 579405007266 FeoA domain; Region: FeoA; pfam04023 579405007267 FeoA domain; Region: FeoA; pfam04023 579405007268 carboxy-terminal protease; Provisional; Region: PRK11186 579405007269 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 579405007270 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 579405007271 protein binding site [polypeptide binding]; other site 579405007272 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 579405007273 Catalytic dyad [active] 579405007274 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 579405007275 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 579405007276 GAF domain; Region: GAF_2; pfam13185 579405007277 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 579405007278 Paraquat-inducible protein A; Region: PqiA; pfam04403 579405007279 Paraquat-inducible protein A; Region: PqiA; pfam04403 579405007280 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 579405007281 mce related protein; Region: MCE; pfam02470 579405007282 mce related protein; Region: MCE; pfam02470 579405007283 mce related protein; Region: MCE; pfam02470 579405007284 mce related protein; Region: MCE; pfam02470 579405007285 mce related protein; Region: MCE; pfam02470 579405007286 mce related protein; Region: MCE; pfam02470 579405007287 mce related protein; Region: MCE; pfam02470 579405007288 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 579405007289 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 579405007290 S-adenosylmethionine binding site [chemical binding]; other site 579405007291 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 579405007292 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 579405007293 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 579405007294 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 579405007295 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 579405007296 dimerization interface [polypeptide binding]; other site 579405007297 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405007298 dimer interface [polypeptide binding]; other site 579405007299 putative CheW interface [polypeptide binding]; other site 579405007300 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 579405007301 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 579405007302 Protein of unknown function (DUF2732); Region: DUF2732; pfam10809 579405007303 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 579405007304 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 579405007305 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 579405007306 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 579405007307 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 579405007308 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 579405007309 baseplate wedge subunit; Provisional; Region: W; PHA02516 579405007310 baseplate assembly protein; Provisional; Region: J; PHA02568 579405007311 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 579405007312 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 579405007313 benzoate transport; Region: 2A0115; TIGR00895 579405007314 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 579405007315 putative substrate translocation pore; other site 579405007316 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 579405007317 putative substrate translocation pore; other site 579405007318 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 579405007319 Smr domain; Region: Smr; pfam01713 579405007320 Phage Tail Collar Domain; Region: Collar; pfam07484 579405007321 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 579405007322 major tail sheath protein; Provisional; Region: FI; PHA02560 579405007323 major tail tube protein; Provisional; Region: FII; PHA02600 579405007324 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 579405007325 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 579405007326 Phage protein U [General function prediction only]; Region: COG3499 579405007327 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 579405007328 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 579405007329 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 579405007330 GAF domain; Region: GAF; pfam01590 579405007331 PAS domain S-box; Region: sensory_box; TIGR00229 579405007332 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 579405007333 putative active site [active] 579405007334 heme pocket [chemical binding]; other site 579405007335 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 579405007336 PAS domain; Region: PAS_9; pfam13426 579405007337 putative active site [active] 579405007338 heme pocket [chemical binding]; other site 579405007339 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 579405007340 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 579405007341 metal binding site [ion binding]; metal-binding site 579405007342 active site 579405007343 I-site; other site 579405007344 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 579405007345 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 579405007346 dimer interface [polypeptide binding]; other site 579405007347 ligand binding site [chemical binding]; other site 579405007348 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 579405007349 dimerization interface [polypeptide binding]; other site 579405007350 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405007351 dimer interface [polypeptide binding]; other site 579405007352 putative CheW interface [polypeptide binding]; other site 579405007353 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 579405007354 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 579405007355 conserved cys residue [active] 579405007356 Phage holin family 2; Region: Phage_holin_2; pfam04550 579405007357 The lysozyme from bacteriophage lambda hydrolyses the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc), as do other lysozymes. But unlike other lysozymes, bacteriophage lambda does not produce a reducing...; Region: bacteriophage_lambda_lysozyme; cd00736 579405007358 N-acetyl-D-glucosamine binding site [chemical binding]; other site 579405007359 catalytic residue [active] 579405007360 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 579405007361 OsmC-like protein; Region: OsmC; cl00767 579405007362 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 579405007363 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 579405007364 Chitin synthase; Region: Chitin_synth_1; pfam01644 579405007365 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 579405007366 hypothetical protein; Provisional; Region: PRK11415 579405007367 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 579405007368 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 579405007369 putative acyl-acceptor binding pocket; other site 579405007370 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 579405007371 DNA-binding site [nucleotide binding]; DNA binding site 579405007372 RNA-binding motif; other site 579405007373 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 579405007374 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 579405007375 Ferritin-like domain; Region: Ferritin; pfam00210 579405007376 ferroxidase diiron center [ion binding]; other site 579405007377 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 579405007378 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 579405007379 protease 2; Provisional; Region: PRK10115 579405007380 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 579405007381 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 579405007382 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 579405007383 ATP-grasp domain; Region: ATP-grasp; pfam02222 579405007384 Protein of unknown function, DUF606; Region: DUF606; pfam04657 579405007385 Protein of unknown function, DUF606; Region: DUF606; pfam04657 579405007386 LysR family transcriptional regulator; Provisional; Region: PRK14997 579405007387 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405007388 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 579405007389 putative effector binding pocket; other site 579405007390 dimerization interface [polypeptide binding]; other site 579405007391 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 579405007392 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 579405007393 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 579405007394 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 579405007395 active site 579405007396 intersubunit interface [polypeptide binding]; other site 579405007397 catalytic residue [active] 579405007398 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 579405007399 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 579405007400 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 579405007401 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 579405007402 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 579405007403 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 579405007404 putative active site [active] 579405007405 pyruvate kinase; Provisional; Region: PRK05826 579405007406 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 579405007407 domain interfaces; other site 579405007408 active site 579405007409 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 579405007410 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 579405007411 putative acyl-acceptor binding pocket; other site 579405007412 putative peptidase; Provisional; Region: PRK11649 579405007413 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 579405007414 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 579405007415 Peptidase family M23; Region: Peptidase_M23; pfam01551 579405007416 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 579405007417 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 579405007418 metal binding site [ion binding]; metal-binding site 579405007419 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 579405007420 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 579405007421 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 579405007422 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 579405007423 ABC-ATPase subunit interface; other site 579405007424 dimer interface [polypeptide binding]; other site 579405007425 putative PBP binding regions; other site 579405007426 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 579405007427 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 579405007428 Walker A motif; other site 579405007429 ATP binding site [chemical binding]; other site 579405007430 Walker B motif; other site 579405007431 arginine finger; other site 579405007432 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 579405007433 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 579405007434 RuvA N terminal domain; Region: RuvA_N; pfam01330 579405007435 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 579405007436 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 579405007437 transketolase; Reviewed; Region: PRK12753 579405007438 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 579405007439 TPP-binding site [chemical binding]; other site 579405007440 dimer interface [polypeptide binding]; other site 579405007441 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 579405007442 PYR/PP interface [polypeptide binding]; other site 579405007443 dimer interface [polypeptide binding]; other site 579405007444 TPP binding site [chemical binding]; other site 579405007445 transaldolase-like protein; Provisional; Region: PTZ00411 579405007446 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 579405007447 active site 579405007448 dimer interface [polypeptide binding]; other site 579405007449 catalytic residue [active] 579405007450 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 579405007451 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 579405007452 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 579405007453 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 579405007454 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 579405007455 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 579405007456 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 579405007457 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 579405007458 substrate binding site [chemical binding]; other site 579405007459 dimer interface [polypeptide binding]; other site 579405007460 triosephosphate isomerase; Provisional; Region: PRK14565 579405007461 catalytic triad [active] 579405007462 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 579405007463 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 579405007464 DNA binding residues [nucleotide binding] 579405007465 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 579405007466 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 579405007467 active site 579405007468 putative DNA-binding cleft [nucleotide binding]; other site 579405007469 dimer interface [polypeptide binding]; other site 579405007470 hypothetical protein; Validated; Region: PRK00110 579405007471 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 579405007472 nudix motif; other site 579405007473 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 579405007474 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 579405007475 dimer interface [polypeptide binding]; other site 579405007476 anticodon binding site; other site 579405007477 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 579405007478 homodimer interface [polypeptide binding]; other site 579405007479 motif 1; other site 579405007480 active site 579405007481 motif 2; other site 579405007482 GAD domain; Region: GAD; pfam02938 579405007483 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 579405007484 active site 579405007485 motif 3; other site 579405007486 hypothetical protein; Provisional; Region: PRK10302 579405007487 hypothetical protein; Provisional; Region: PRK07206 579405007488 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 579405007489 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 579405007490 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 579405007491 catalytic residue [active] 579405007492 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 579405007493 active site 579405007494 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 579405007495 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 579405007496 dimer interface [polypeptide binding]; other site 579405007497 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405007498 catalytic residue [active] 579405007499 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 579405007500 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 579405007501 S-adenosylmethionine binding site [chemical binding]; other site 579405007502 Methyltransferase domain; Region: Methyltransf_23; pfam13489 579405007503 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 579405007504 S-adenosylmethionine binding site [chemical binding]; other site 579405007505 copper homeostasis protein CutC; Provisional; Region: PRK11572 579405007506 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 579405007507 putative metal binding site [ion binding]; other site 579405007508 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 579405007509 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 579405007510 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 579405007511 active site 579405007512 HIGH motif; other site 579405007513 KMSK motif region; other site 579405007514 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 579405007515 tRNA binding surface [nucleotide binding]; other site 579405007516 anticodon binding site; other site 579405007517 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 579405007518 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 579405007519 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 579405007520 HAMP domain; Region: HAMP; pfam00672 579405007521 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405007522 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405007523 dimer interface [polypeptide binding]; other site 579405007524 putative CheW interface [polypeptide binding]; other site 579405007525 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 579405007526 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 579405007527 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 579405007528 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 579405007529 hypothetical protein; Provisional; Region: PRK11239 579405007530 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 579405007531 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 579405007532 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 579405007533 multidrug resistance protein MdtH; Provisional; Region: PRK11646 579405007534 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 579405007535 putative substrate translocation pore; other site 579405007536 glutaredoxin 2; Provisional; Region: PRK10387 579405007537 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 579405007538 C-terminal domain interface [polypeptide binding]; other site 579405007539 GSH binding site (G-site) [chemical binding]; other site 579405007540 catalytic residues [active] 579405007541 putative dimer interface [polypeptide binding]; other site 579405007542 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 579405007543 N-terminal domain interface [polypeptide binding]; other site 579405007544 lipoprotein; Provisional; Region: PRK10598 579405007545 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 579405007546 putative hydrolase; Validated; Region: PRK09248 579405007547 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 579405007548 active site 579405007549 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 579405007550 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 579405007551 motif II; other site 579405007552 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 579405007553 homotrimer interaction site [polypeptide binding]; other site 579405007554 putative active site [active] 579405007555 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 579405007556 PLD-like domain; Region: PLDc_2; pfam13091 579405007557 homodimer interface [polypeptide binding]; other site 579405007558 putative active site [active] 579405007559 catalytic site [active] 579405007560 Transcriptional regulators [Transcription]; Region: MarR; COG1846 579405007561 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 579405007562 putative Zn2+ binding site [ion binding]; other site 579405007563 putative DNA binding site [nucleotide binding]; other site 579405007564 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405007565 Coenzyme A binding pocket [chemical binding]; other site 579405007566 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 579405007567 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 579405007568 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 579405007569 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 579405007570 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 579405007571 dimer interface [polypeptide binding]; other site 579405007572 ADP-ribose binding site [chemical binding]; other site 579405007573 active site 579405007574 nudix motif; other site 579405007575 metal binding site [ion binding]; metal-binding site 579405007576 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 579405007577 B1 nucleotide binding pocket [chemical binding]; other site 579405007578 B2 nucleotide binding pocket [chemical binding]; other site 579405007579 CAS motifs; other site 579405007580 active site 579405007581 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 579405007582 nudix motif; other site 579405007583 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 579405007584 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 579405007585 putative active site [active] 579405007586 putative FMN binding site [chemical binding]; other site 579405007587 putative substrate binding site [chemical binding]; other site 579405007588 putative catalytic residue [active] 579405007589 Predicted transcriptional regulators [Transcription]; Region: COG1733 579405007590 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 579405007591 dimerization interface [polypeptide binding]; other site 579405007592 putative DNA binding site [nucleotide binding]; other site 579405007593 putative Zn2+ binding site [ion binding]; other site 579405007594 multicopper oxidase; Provisional; Region: PRK10965 579405007595 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 579405007596 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 579405007597 cell division protein MukB; Provisional; Region: mukB; PRK04863 579405007598 P-loop containing region of AAA domain; Region: AAA_29; cl17516 579405007599 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 579405007600 condesin subunit E; Provisional; Region: PRK05256 579405007601 condesin subunit F; Provisional; Region: PRK05260 579405007602 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 579405007603 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 579405007604 S-adenosylmethionine binding site [chemical binding]; other site 579405007605 Uncharacterized conserved protein [Function unknown]; Region: COG1434 579405007606 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 579405007607 putative active site [active] 579405007608 hypothetical protein; Provisional; Region: PRK10593 579405007609 Right handed beta helix region; Region: Beta_helix; pfam13229 579405007610 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 579405007611 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 579405007612 Ligand binding site; other site 579405007613 oligomer interface; other site 579405007614 Trm112p-like protein; Region: Trm112p; cl01066 579405007615 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 579405007616 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 579405007617 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 579405007618 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 579405007619 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 579405007620 Walker A/P-loop; other site 579405007621 ATP binding site [chemical binding]; other site 579405007622 Q-loop/lid; other site 579405007623 ABC transporter signature motif; other site 579405007624 Walker B; other site 579405007625 D-loop; other site 579405007626 H-loop/switch region; other site 579405007627 ComEC family competence protein; Provisional; Region: PRK11539 579405007628 Competence protein; Region: Competence; pfam03772 579405007629 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 579405007630 hypothetical protein; Provisional; Region: PRK05423 579405007631 exonuclease I; Provisional; Region: sbcB; PRK11779 579405007632 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 579405007633 active site 579405007634 catalytic site [active] 579405007635 substrate binding site [chemical binding]; other site 579405007636 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 579405007637 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 579405007638 Flagellar regulator YcgR; Region: YcgR; pfam07317 579405007639 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 579405007640 PilZ domain; Region: PilZ; pfam07238 579405007641 triphosphoribosyl-dephospho-CoA synthase CitG; Region: citrate_citG; TIGR03125 579405007642 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; pfam03802 579405007643 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 579405007644 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 579405007645 citrate lyase subunit gamma; Provisional; Region: PRK13253 579405007646 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 579405007647 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 579405007648 putative active site [active] 579405007649 (T/H)XGH motif; other site 579405007650 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 579405007651 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 579405007652 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 579405007653 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 579405007654 PAS domain; Region: PAS; smart00091 579405007655 putative active site [active] 579405007656 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 579405007657 ATP binding site [chemical binding]; other site 579405007658 Mg2+ binding site [ion binding]; other site 579405007659 G-X-G motif; other site 579405007660 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 579405007661 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 579405007662 active site 579405007663 phosphorylation site [posttranslational modification] 579405007664 intermolecular recognition site; other site 579405007665 dimerization interface [polypeptide binding]; other site 579405007666 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 579405007667 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 579405007668 putative NAD(P) binding site [chemical binding]; other site 579405007669 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 579405007670 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 579405007671 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 579405007672 Histidinol dehydrogenase; Region: Histidinol_dh; pfam00815 579405007673 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 579405007674 NAD binding site [chemical binding]; other site 579405007675 dimerization interface [polypeptide binding]; other site 579405007676 product binding site; other site 579405007677 substrate binding site [chemical binding]; other site 579405007678 zinc binding site [ion binding]; other site 579405007679 catalytic residues [active] 579405007680 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 579405007681 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 579405007682 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405007683 homodimer interface [polypeptide binding]; other site 579405007684 catalytic residue [active] 579405007685 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 579405007686 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 579405007687 active site 579405007688 motif I; other site 579405007689 motif II; other site 579405007690 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 579405007691 putative active site pocket [active] 579405007692 4-fold oligomerization interface [polypeptide binding]; other site 579405007693 metal binding residues [ion binding]; metal-binding site 579405007694 3-fold/trimer interface [polypeptide binding]; other site 579405007695 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 579405007696 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 579405007697 putative active site [active] 579405007698 oxyanion strand; other site 579405007699 catalytic triad [active] 579405007700 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 579405007701 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 579405007702 catalytic residues [active] 579405007703 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 579405007704 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 579405007705 substrate binding site [chemical binding]; other site 579405007706 glutamase interaction surface [polypeptide binding]; other site 579405007707 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 579405007708 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 579405007709 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 579405007710 metal binding site [ion binding]; metal-binding site 579405007711 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 579405007712 IHF dimer interface [polypeptide binding]; other site 579405007713 IHF - DNA interface [nucleotide binding]; other site 579405007714 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 579405007715 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 579405007716 RNA binding site [nucleotide binding]; other site 579405007717 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 579405007718 RNA binding site [nucleotide binding]; other site 579405007719 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 579405007720 RNA binding site [nucleotide binding]; other site 579405007721 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 579405007722 RNA binding site [nucleotide binding]; other site 579405007723 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 579405007724 RNA binding site [nucleotide binding]; other site 579405007725 cytidylate kinase; Provisional; Region: cmk; PRK00023 579405007726 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 579405007727 CMP-binding site; other site 579405007728 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 579405007729 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 579405007730 hinge; other site 579405007731 active site 579405007732 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 579405007733 homodimer interface [polypeptide binding]; other site 579405007734 substrate-cofactor binding pocket; other site 579405007735 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405007736 catalytic residue [active] 579405007737 uncharacterized domain; Region: TIGR00702 579405007738 YcaO-like family; Region: YcaO; pfam02624 579405007739 formate transporter; Provisional; Region: PRK10805 579405007740 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 579405007741 Pyruvate formate lyase 1; Region: PFL1; cd01678 579405007742 coenzyme A binding site [chemical binding]; other site 579405007743 active site 579405007744 catalytic residues [active] 579405007745 glycine loop; other site 579405007746 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 579405007747 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 579405007748 FeS/SAM binding site; other site 579405007749 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405007750 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405007751 LysR substrate binding domain; Region: LysR_substrate; pfam03466 579405007752 dimerization interface [polypeptide binding]; other site 579405007753 putative MFS family transporter protein; Provisional; Region: PRK03633 579405007754 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 579405007755 putative substrate translocation pore; other site 579405007756 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 579405007757 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 579405007758 catalytic residues [active] 579405007759 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 579405007760 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 579405007761 putative C-terminal domain interface [polypeptide binding]; other site 579405007762 putative GSH binding site (G-site) [chemical binding]; other site 579405007763 putative dimer interface [polypeptide binding]; other site 579405007764 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 579405007765 putative N-terminal domain interface [polypeptide binding]; other site 579405007766 putative dimer interface [polypeptide binding]; other site 579405007767 putative substrate binding pocket (H-site) [chemical binding]; other site 579405007768 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 579405007769 DMSO reductase anchor subunit [General function prediction only]; Region: DmsC; COG3302 579405007770 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 579405007771 4Fe-4S binding domain; Region: Fer4; pfam00037 579405007772 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 579405007773 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 579405007774 putative [Fe4-S4] binding site [ion binding]; other site 579405007775 putative molybdopterin cofactor binding site [chemical binding]; other site 579405007776 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 579405007777 putative molybdopterin cofactor binding site; other site 579405007778 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 579405007779 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 579405007780 putative [Fe4-S4] binding site [ion binding]; other site 579405007781 putative molybdopterin cofactor binding site [chemical binding]; other site 579405007782 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 579405007783 putative molybdopterin cofactor binding site; other site 579405007784 seryl-tRNA synthetase; Provisional; Region: PRK05431 579405007785 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 579405007786 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 579405007787 dimer interface [polypeptide binding]; other site 579405007788 active site 579405007789 motif 1; other site 579405007790 motif 2; other site 579405007791 motif 3; other site 579405007792 recombination factor protein RarA; Reviewed; Region: PRK13342 579405007793 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 579405007794 Walker A motif; other site 579405007795 ATP binding site [chemical binding]; other site 579405007796 Walker B motif; other site 579405007797 arginine finger; other site 579405007798 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 579405007799 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 579405007800 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 579405007801 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 579405007802 DNA translocase FtsK; Provisional; Region: PRK10263 579405007803 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 579405007804 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 579405007805 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 579405007806 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 579405007807 putative DNA binding site [nucleotide binding]; other site 579405007808 putative Zn2+ binding site [ion binding]; other site 579405007809 AsnC family; Region: AsnC_trans_reg; pfam01037 579405007810 thioredoxin reductase; Provisional; Region: PRK10262 579405007811 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 579405007812 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 579405007813 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 579405007814 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 579405007815 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 579405007816 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405007817 Walker A/P-loop; other site 579405007818 ATP binding site [chemical binding]; other site 579405007819 Q-loop/lid; other site 579405007820 ABC transporter signature motif; other site 579405007821 Walker B; other site 579405007822 D-loop; other site 579405007823 H-loop/switch region; other site 579405007824 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 579405007825 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405007826 Walker A/P-loop; other site 579405007827 ATP binding site [chemical binding]; other site 579405007828 Q-loop/lid; other site 579405007829 ABC transporter signature motif; other site 579405007830 Walker B; other site 579405007831 D-loop; other site 579405007832 H-loop/switch region; other site 579405007833 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 579405007834 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 579405007835 rRNA binding site [nucleotide binding]; other site 579405007836 predicted 30S ribosome binding site; other site 579405007837 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 579405007838 Clp amino terminal domain; Region: Clp_N; pfam02861 579405007839 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 579405007840 Walker A motif; other site 579405007841 ATP binding site [chemical binding]; other site 579405007842 Walker B motif; other site 579405007843 arginine finger; other site 579405007844 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 579405007845 Walker A motif; other site 579405007846 ATP binding site [chemical binding]; other site 579405007847 Walker B motif; other site 579405007848 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 579405007849 Uncharacterized conserved protein [Function unknown]; Region: COG2127 579405007850 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 579405007851 DNA-binding site [nucleotide binding]; DNA binding site 579405007852 RNA-binding motif; other site 579405007853 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 579405007854 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 579405007855 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 579405007856 putative active site [active] 579405007857 putative metal-binding site [ion binding]; other site 579405007858 hybrid cluster protein; Provisional; Region: PRK05290 579405007859 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 579405007860 ACS interaction site; other site 579405007861 CODH interaction site; other site 579405007862 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 579405007863 hybrid metal cluster; other site 579405007864 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 579405007865 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 579405007866 FAD binding pocket [chemical binding]; other site 579405007867 FAD binding motif [chemical binding]; other site 579405007868 phosphate binding motif [ion binding]; other site 579405007869 beta-alpha-beta structure motif; other site 579405007870 NAD binding pocket [chemical binding]; other site 579405007871 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 579405007872 catalytic loop [active] 579405007873 iron binding site [ion binding]; other site 579405007874 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 579405007875 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 579405007876 NAD(P) binding site [chemical binding]; other site 579405007877 active site 579405007878 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 579405007879 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 579405007880 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 579405007881 amidase catalytic site [active] 579405007882 Zn binding residues [ion binding]; other site 579405007883 substrate binding site [chemical binding]; other site 579405007884 hypothetical protein; Provisional; Region: PRK02877 579405007885 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 579405007886 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 579405007887 Walker A/P-loop; other site 579405007888 ATP binding site [chemical binding]; other site 579405007889 Q-loop/lid; other site 579405007890 ABC transporter signature motif; other site 579405007891 Walker B; other site 579405007892 D-loop; other site 579405007893 H-loop/switch region; other site 579405007894 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 579405007895 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 579405007896 substrate binding pocket [chemical binding]; other site 579405007897 membrane-bound complex binding site; other site 579405007898 hinge residues; other site 579405007899 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 579405007900 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 579405007901 dimer interface [polypeptide binding]; other site 579405007902 conserved gate region; other site 579405007903 putative PBP binding loops; other site 579405007904 ABC-ATPase subunit interface; other site 579405007905 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 579405007906 dimer interface [polypeptide binding]; other site 579405007907 conserved gate region; other site 579405007908 putative PBP binding loops; other site 579405007909 ABC-ATPase subunit interface; other site 579405007910 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 579405007911 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 579405007912 substrate binding pocket [chemical binding]; other site 579405007913 membrane-bound complex binding site; other site 579405007914 hinge residues; other site 579405007915 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 579405007916 Major Facilitator Superfamily; Region: MFS_1; pfam07690 579405007917 putative substrate translocation pore; other site 579405007918 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 579405007919 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 579405007920 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 579405007921 dimer interface [polypeptide binding]; other site 579405007922 conserved gate region; other site 579405007923 putative PBP binding loops; other site 579405007924 ABC-ATPase subunit interface; other site 579405007925 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 579405007926 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 579405007927 dimer interface [polypeptide binding]; other site 579405007928 conserved gate region; other site 579405007929 putative PBP binding loops; other site 579405007930 ABC-ATPase subunit interface; other site 579405007931 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 579405007932 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405007933 Walker A/P-loop; other site 579405007934 ATP binding site [chemical binding]; other site 579405007935 Q-loop/lid; other site 579405007936 ABC transporter signature motif; other site 579405007937 Walker B; other site 579405007938 D-loop; other site 579405007939 H-loop/switch region; other site 579405007940 TOBE domain; Region: TOBE_2; pfam08402 579405007941 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 579405007942 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 579405007943 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 579405007944 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 579405007945 RimK-like ATP-grasp domain; Region: RimK; pfam08443 579405007946 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 579405007947 dimer interface [polypeptide binding]; other site 579405007948 FMN binding site [chemical binding]; other site 579405007949 NADPH bind site [chemical binding]; other site 579405007950 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 579405007951 GSH binding site [chemical binding]; other site 579405007952 catalytic residues [active] 579405007953 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 579405007954 putative transporter; Provisional; Region: PRK04972 579405007955 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 579405007956 TrkA-C domain; Region: TrkA_C; pfam02080 579405007957 TrkA-C domain; Region: TrkA_C; pfam02080 579405007958 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 579405007959 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 579405007960 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 579405007961 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 579405007962 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 579405007963 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 579405007964 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 579405007965 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 579405007966 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 579405007967 dimer interface [polypeptide binding]; other site 579405007968 conserved gate region; other site 579405007969 ABC-ATPase subunit interface; other site 579405007970 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 579405007971 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 579405007972 Walker A/P-loop; other site 579405007973 ATP binding site [chemical binding]; other site 579405007974 Q-loop/lid; other site 579405007975 ABC transporter signature motif; other site 579405007976 Walker B; other site 579405007977 D-loop; other site 579405007978 H-loop/switch region; other site 579405007979 NIL domain; Region: NIL; pfam09383 579405007980 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 579405007981 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 579405007982 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 579405007983 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 579405007984 putative C-terminal domain interface [polypeptide binding]; other site 579405007985 putative GSH binding site (G-site) [chemical binding]; other site 579405007986 putative dimer interface [polypeptide binding]; other site 579405007987 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 579405007988 putative N-terminal domain interface [polypeptide binding]; other site 579405007989 putative dimer interface [polypeptide binding]; other site 579405007990 putative substrate binding pocket (H-site) [chemical binding]; other site 579405007991 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405007992 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405007993 LysR substrate binding domain; Region: LysR_substrate; pfam03466 579405007994 dimerization interface [polypeptide binding]; other site 579405007995 Tannase and feruloyl esterase; Region: Tannase; pfam07519 579405007996 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 579405007997 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 579405007998 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 579405007999 FeS/SAM binding site; other site 579405008000 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 579405008001 putative active site [active] 579405008002 Predicted membrane protein [Function unknown]; Region: COG2311 579405008003 hypothetical protein; Provisional; Region: PRK10835 579405008004 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 579405008005 active site 579405008006 HAMP domain; Region: HAMP; pfam00672 579405008007 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405008008 dimer interface [polypeptide binding]; other site 579405008009 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 579405008010 putative CheW interface [polypeptide binding]; other site 579405008011 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405008012 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405008013 dimer interface [polypeptide binding]; other site 579405008014 putative CheW interface [polypeptide binding]; other site 579405008015 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405008016 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405008017 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 579405008018 dimerization interface [polypeptide binding]; other site 579405008019 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 579405008020 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 579405008021 substrate binding site [chemical binding]; other site 579405008022 catalytic Zn binding site [ion binding]; other site 579405008023 NAD binding site [chemical binding]; other site 579405008024 structural Zn binding site [ion binding]; other site 579405008025 dimer interface [polypeptide binding]; other site 579405008026 S-formylglutathione hydrolase; Region: PLN02442 579405008027 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 579405008028 KTSC domain; Region: KTSC; pfam13619 579405008029 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 579405008030 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 579405008031 putative active site [active] 579405008032 metal binding site [ion binding]; metal-binding site 579405008033 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 579405008034 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 579405008035 Walker A/P-loop; other site 579405008036 ATP binding site [chemical binding]; other site 579405008037 Q-loop/lid; other site 579405008038 ABC transporter signature motif; other site 579405008039 Walker B; other site 579405008040 D-loop; other site 579405008041 H-loop/switch region; other site 579405008042 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 579405008043 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 579405008044 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 579405008045 TM-ABC transporter signature motif; other site 579405008046 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 579405008047 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 579405008048 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide acyltransferase (E2) component, and related enzymes [Energy production and conversion]; Region: AceF; COG0508 579405008049 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405008050 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 579405008051 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 579405008052 active site 579405008053 motif I; other site 579405008054 motif II; other site 579405008055 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 579405008056 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 579405008057 active site 579405008058 putative arabinose transporter; Provisional; Region: PRK03545 579405008059 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 579405008060 putative substrate translocation pore; other site 579405008061 lysine transporter; Provisional; Region: PRK10836 579405008062 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 579405008063 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405008064 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 579405008065 putative dimerization interface [polypeptide binding]; other site 579405008066 Predicted membrane protein [Function unknown]; Region: COG2855 579405008067 endonuclease IV; Provisional; Region: PRK01060 579405008068 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 579405008069 AP (apurinic/apyrimidinic) site pocket; other site 579405008070 DNA interaction; other site 579405008071 Metal-binding active site; metal-binding site 579405008072 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 579405008073 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 579405008074 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 579405008075 active site 579405008076 P-loop; other site 579405008077 phosphorylation site [posttranslational modification] 579405008078 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 579405008079 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 579405008080 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 579405008081 putative substrate binding site [chemical binding]; other site 579405008082 putative ATP binding site [chemical binding]; other site 579405008083 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 579405008084 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 579405008085 active site 579405008086 phosphorylation site [posttranslational modification] 579405008087 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 579405008088 dimerization domain swap beta strand [polypeptide binding]; other site 579405008089 regulatory protein interface [polypeptide binding]; other site 579405008090 active site 579405008091 regulatory phosphorylation site [posttranslational modification]; other site 579405008092 sugar efflux transporter B; Provisional; Region: PRK15011 579405008093 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 579405008094 putative substrate translocation pore; other site 579405008095 Flagellin N-methylase; Region: FliB; pfam03692 579405008096 elongation factor P; Provisional; Region: PRK04542 579405008097 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 579405008098 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 579405008099 RNA binding site [nucleotide binding]; other site 579405008100 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 579405008101 RNA binding site [nucleotide binding]; other site 579405008102 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 579405008103 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 579405008104 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 579405008105 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 579405008106 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 579405008107 active site 579405008108 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 579405008109 NlpC/P60 family; Region: NLPC_P60; pfam00877 579405008110 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 579405008111 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 579405008112 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 579405008113 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 579405008114 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 579405008115 dimer interface [polypeptide binding]; other site 579405008116 conserved gate region; other site 579405008117 putative PBP binding loops; other site 579405008118 ABC-ATPase subunit interface; other site 579405008119 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 579405008120 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 579405008121 dimer interface [polypeptide binding]; other site 579405008122 conserved gate region; other site 579405008123 putative PBP binding loops; other site 579405008124 ABC-ATPase subunit interface; other site 579405008125 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 579405008126 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405008127 Walker A/P-loop; other site 579405008128 ATP binding site [chemical binding]; other site 579405008129 Q-loop/lid; other site 579405008130 ABC transporter signature motif; other site 579405008131 Walker B; other site 579405008132 D-loop; other site 579405008133 H-loop/switch region; other site 579405008134 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405008135 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405008136 Walker A/P-loop; other site 579405008137 ATP binding site [chemical binding]; other site 579405008138 Q-loop/lid; other site 579405008139 ABC transporter signature motif; other site 579405008140 Walker B; other site 579405008141 D-loop; other site 579405008142 H-loop/switch region; other site 579405008143 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 579405008144 Transposase; Region: HTH_Tnp_1; pfam01527 579405008145 putative transposase OrfB; Reviewed; Region: PHA02517 579405008146 HTH-like domain; Region: HTH_21; pfam13276 579405008147 Integrase core domain; Region: rve; pfam00665 579405008148 Integrase core domain; Region: rve_2; pfam13333 579405008149 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 579405008150 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 579405008151 active site 579405008152 catalytic site [active] 579405008153 substrate binding site [chemical binding]; other site 579405008154 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 579405008155 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 579405008156 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 579405008157 ATP binding site [chemical binding]; other site 579405008158 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 579405008159 active site 579405008160 NTP binding site [chemical binding]; other site 579405008161 metal binding triad [ion binding]; metal-binding site 579405008162 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 579405008163 active site 579405008164 hypothetical protein; Reviewed; Region: PRK00024 579405008165 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 579405008166 MPN+ (JAMM) motif; other site 579405008167 Zinc-binding site [ion binding]; other site 579405008168 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 579405008169 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 579405008170 hypothetical protein; Provisional; Region: PRK11835 579405008171 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 579405008172 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 579405008173 putative substrate translocation pore; other site 579405008174 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 579405008175 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 579405008176 RNA binding surface [nucleotide binding]; other site 579405008177 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 579405008178 active site 579405008179 uracil binding [chemical binding]; other site 579405008180 probable metal-binding protein; Region: matur_matur; TIGR03853 579405008181 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 579405008182 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 579405008183 ATP binding site [chemical binding]; other site 579405008184 putative Mg++ binding site [ion binding]; other site 579405008185 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 579405008186 nucleotide binding region [chemical binding]; other site 579405008187 ATP-binding site [chemical binding]; other site 579405008188 Double zinc ribbon; Region: DZR; pfam12773 579405008189 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 579405008190 5S rRNA interface [nucleotide binding]; other site 579405008191 CTC domain interface [polypeptide binding]; other site 579405008192 L16 interface [polypeptide binding]; other site 579405008193 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 579405008194 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 579405008195 putative substrate translocation pore; other site 579405008196 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 579405008197 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 579405008198 active site 579405008199 phosphorylation site [posttranslational modification] 579405008200 intermolecular recognition site; other site 579405008201 dimerization interface [polypeptide binding]; other site 579405008202 LytTr DNA-binding domain; Region: LytTR; pfam04397 579405008203 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 579405008204 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 579405008205 Histidine kinase; Region: His_kinase; pfam06580 579405008206 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 579405008207 ATP binding site [chemical binding]; other site 579405008208 Mg2+ binding site [ion binding]; other site 579405008209 G-X-G motif; other site 579405008210 Nucleoid-associated protein [General function prediction only]; Region: COG3081 579405008211 nucleoid-associated protein NdpA; Validated; Region: PRK00378 579405008212 hypothetical protein; Provisional; Region: PRK13689 579405008213 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 579405008214 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 579405008215 Sulfatase; Region: Sulfatase; cl17466 579405008216 integrase; Provisional; Region: PRK09692 579405008217 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 579405008218 active site 579405008219 Int/Topo IB signature motif; other site 579405008220 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 579405008221 Domain of unknown function (DUF3950); Region: DUF3950; pfam13132 579405008222 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 579405008223 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 579405008224 active site 579405008225 metal binding site [ion binding]; metal-binding site 579405008226 interdomain interaction site; other site 579405008227 Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG5519 579405008228 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405008229 AAA domain; Region: AAA_21; pfam13304 579405008230 Walker A/P-loop; other site 579405008231 ATP binding site [chemical binding]; other site 579405008232 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 579405008233 ABC transporter signature motif; other site 579405008234 Walker B; other site 579405008235 D-loop; other site 579405008236 H-loop/switch region; other site 579405008237 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 579405008238 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 579405008239 active site 579405008240 NTP binding site [chemical binding]; other site 579405008241 nucleic acid binding site [nucleotide binding]; other site 579405008242 Helper component proteinase; Region: Peptidase_C6; pfam00851 579405008243 GlpM protein; Region: GlpM; cl01212 579405008244 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 579405008245 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 579405008246 putative dimer interface [polypeptide binding]; other site 579405008247 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 579405008248 Na binding site [ion binding]; other site 579405008249 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 579405008250 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 579405008251 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 579405008252 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional; Region: PRK12833 579405008253 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 579405008254 ATP-grasp domain; Region: ATP-grasp_4; cl17255 579405008255 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 579405008256 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 579405008257 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 579405008258 carboxyltransferase (CT) interaction site; other site 579405008259 biotinylation site [posttranslational modification]; other site 579405008260 hypothetical protein; Provisional; Region: PRK12569 579405008261 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405008262 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405008263 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 579405008264 putative substrate binding pocket [chemical binding]; other site 579405008265 dimerization interface [polypeptide binding]; other site 579405008266 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 579405008267 MarR family; Region: MarR_2; cl17246 579405008268 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 579405008269 outer membrane protein X; Provisional; Region: ompX; PRK09408 579405008270 threonine and homoserine efflux system; Provisional; Region: PRK10532 579405008271 EamA-like transporter family; Region: EamA; pfam00892 579405008272 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 579405008273 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 579405008274 substrate binding pocket [chemical binding]; other site 579405008275 membrane-bound complex binding site; other site 579405008276 hinge residues; other site 579405008277 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 579405008278 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 579405008279 dimer interface [polypeptide binding]; other site 579405008280 conserved gate region; other site 579405008281 putative PBP binding loops; other site 579405008282 ABC-ATPase subunit interface; other site 579405008283 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 579405008284 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 579405008285 Walker A/P-loop; other site 579405008286 ATP binding site [chemical binding]; other site 579405008287 Q-loop/lid; other site 579405008288 ABC transporter signature motif; other site 579405008289 Walker B; other site 579405008290 D-loop; other site 579405008291 H-loop/switch region; other site 579405008292 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 579405008293 Interdomain contacts; other site 579405008294 Cytokine receptor motif; other site 579405008295 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 579405008296 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 579405008297 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 579405008298 active site 579405008299 Peptidase M3-like family, a zincin metallopeptidase, includes M3 and M32 families; Region: M3_like; cd06258 579405008300 active site 579405008301 Zn binding site [ion binding]; other site 579405008302 glycosyl transferase family protein; Provisional; Region: PRK08136 579405008303 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 579405008304 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 579405008305 DEAD_2; Region: DEAD_2; pfam06733 579405008306 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 579405008307 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 579405008308 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 579405008309 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405008310 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 579405008311 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 579405008312 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 579405008313 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 579405008314 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 579405008315 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 579405008316 inhibitor-cofactor binding pocket; inhibition site 579405008317 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405008318 catalytic residue [active] 579405008319 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 579405008320 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 579405008321 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 579405008322 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 579405008323 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 579405008324 putative C-terminal domain interface [polypeptide binding]; other site 579405008325 putative GSH binding site (G-site) [chemical binding]; other site 579405008326 putative dimer interface [polypeptide binding]; other site 579405008327 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 579405008328 putative substrate binding pocket (H-site) [chemical binding]; other site 579405008329 putative N-terminal domain interface [polypeptide binding]; other site 579405008330 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 579405008331 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 579405008332 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 579405008333 putative active site [active] 579405008334 putative metal binding residues [ion binding]; other site 579405008335 signature motif; other site 579405008336 putative triphosphate binding site [ion binding]; other site 579405008337 dimer interface [polypeptide binding]; other site 579405008338 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 579405008339 FosA, a Fosfomycin resistance protein, catalyzes the addition of glutathione to the antibiotic fosfomycin, making it inactive; Region: FosA; cd07244 579405008340 dimer interface [polypeptide binding]; other site 579405008341 Mn binding site [ion binding]; other site 579405008342 K binding site [ion binding]; other site 579405008343 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 579405008344 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 579405008345 FMN binding site [chemical binding]; other site 579405008346 active site 579405008347 catalytic residues [active] 579405008348 substrate binding site [chemical binding]; other site 579405008349 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 579405008350 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 579405008351 peptide binding site [polypeptide binding]; other site 579405008352 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 579405008353 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 579405008354 metal binding site [ion binding]; metal-binding site 579405008355 dimer interface [polypeptide binding]; other site 579405008356 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405008357 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 579405008358 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405008359 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 579405008360 EamA-like transporter family; Region: EamA; pfam00892 579405008361 EamA-like transporter family; Region: EamA; pfam00892 579405008362 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 579405008363 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 579405008364 ATP binding site [chemical binding]; other site 579405008365 Mg++ binding site [ion binding]; other site 579405008366 motif III; other site 579405008367 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 579405008368 nucleotide binding region [chemical binding]; other site 579405008369 ATP-binding site [chemical binding]; other site 579405008370 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 579405008371 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 579405008372 HlyD family secretion protein; Region: HlyD_3; pfam13437 579405008373 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 579405008374 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 579405008375 Walker A/P-loop; other site 579405008376 ATP binding site [chemical binding]; other site 579405008377 Q-loop/lid; other site 579405008378 ABC transporter signature motif; other site 579405008379 Walker B; other site 579405008380 D-loop; other site 579405008381 H-loop/switch region; other site 579405008382 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 579405008383 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 579405008384 Walker A/P-loop; other site 579405008385 ATP binding site [chemical binding]; other site 579405008386 Q-loop/lid; other site 579405008387 ABC transporter signature motif; other site 579405008388 Walker B; other site 579405008389 D-loop; other site 579405008390 H-loop/switch region; other site 579405008391 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 579405008392 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 579405008393 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 579405008394 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 579405008395 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 579405008396 putative catalytic site [active] 579405008397 putative metal binding site [ion binding]; other site 579405008398 putative phosphate binding site [ion binding]; other site 579405008399 cardiolipin synthase 2; Provisional; Region: PRK11263 579405008400 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 579405008401 putative active site [active] 579405008402 catalytic site [active] 579405008403 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 579405008404 putative active site [active] 579405008405 catalytic site [active] 579405008406 Membrane transport protein; Region: Mem_trans; cl09117 579405008407 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 579405008408 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 579405008409 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 579405008410 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 579405008411 Walker A/P-loop; other site 579405008412 ATP binding site [chemical binding]; other site 579405008413 Q-loop/lid; other site 579405008414 ABC transporter signature motif; other site 579405008415 Walker B; other site 579405008416 D-loop; other site 579405008417 H-loop/switch region; other site 579405008418 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 579405008419 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 579405008420 dimer interface [polypeptide binding]; other site 579405008421 conserved gate region; other site 579405008422 putative PBP binding loops; other site 579405008423 ABC-ATPase subunit interface; other site 579405008424 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 579405008425 dimer interface [polypeptide binding]; other site 579405008426 conserved gate region; other site 579405008427 putative PBP binding loops; other site 579405008428 ABC-ATPase subunit interface; other site 579405008429 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 579405008430 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 579405008431 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 579405008432 MoaE homodimer interface [polypeptide binding]; other site 579405008433 MoaD interaction [polypeptide binding]; other site 579405008434 active site residues [active] 579405008435 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 579405008436 MoaE interaction surface [polypeptide binding]; other site 579405008437 MoeB interaction surface [polypeptide binding]; other site 579405008438 thiocarboxylated glycine; other site 579405008439 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 579405008440 trimer interface [polypeptide binding]; other site 579405008441 dimer interface [polypeptide binding]; other site 579405008442 putative active site [active] 579405008443 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 579405008444 MPT binding site; other site 579405008445 trimer interface [polypeptide binding]; other site 579405008446 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 579405008447 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 579405008448 FeS/SAM binding site; other site 579405008449 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 579405008450 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 579405008451 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 579405008452 phosphate binding site [ion binding]; other site 579405008453 putative substrate binding pocket [chemical binding]; other site 579405008454 dimer interface [polypeptide binding]; other site 579405008455 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; cd06587 579405008456 active site 579405008457 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 579405008458 excinuclease ABC subunit B; Provisional; Region: PRK05298 579405008459 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 579405008460 ATP binding site [chemical binding]; other site 579405008461 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 579405008462 nucleotide binding region [chemical binding]; other site 579405008463 ATP-binding site [chemical binding]; other site 579405008464 Ultra-violet resistance protein B; Region: UvrB; pfam12344 579405008465 UvrB/uvrC motif; Region: UVR; pfam02151 579405008466 AAA domain; Region: AAA_26; pfam13500 579405008467 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 579405008468 ADP binding site [chemical binding]; other site 579405008469 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 579405008470 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 579405008471 S-adenosylmethionine binding site [chemical binding]; other site 579405008472 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 579405008473 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 579405008474 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 579405008475 catalytic residue [active] 579405008476 biotin synthase; Provisional; Region: PRK15108 579405008477 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 579405008478 FeS/SAM binding site; other site 579405008479 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 579405008480 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 579405008481 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 579405008482 inhibitor-cofactor binding pocket; inhibition site 579405008483 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405008484 catalytic residue [active] 579405008485 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 579405008486 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 579405008487 putative substrate translocation pore; other site 579405008488 Cupin domain; Region: Cupin_2; cl17218 579405008489 Helix-turn-helix domain; Region: HTH_18; pfam12833 579405008490 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 579405008491 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 579405008492 hypothetical protein; Provisional; Region: PRK01821 579405008493 hypothetical protein; Provisional; Region: PRK10711 579405008494 cytidine deaminase; Provisional; Region: PRK09027 579405008495 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 579405008496 active site 579405008497 catalytic motif [active] 579405008498 Zn binding site [ion binding]; other site 579405008499 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 579405008500 malate dehydrogenase; Provisional; Region: PRK13529 579405008501 Malic enzyme, N-terminal domain; Region: malic; pfam00390 579405008502 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 579405008503 NAD(P) binding site [chemical binding]; other site 579405008504 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 579405008505 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 579405008506 dimer interface [polypeptide binding]; other site 579405008507 putative functional site; other site 579405008508 putative MPT binding site; other site 579405008509 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 579405008510 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 579405008511 ATP binding site [chemical binding]; other site 579405008512 substrate interface [chemical binding]; other site 579405008513 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 579405008514 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 579405008515 dimer interface [polypeptide binding]; other site 579405008516 FMN binding site [chemical binding]; other site 579405008517 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 579405008518 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 579405008519 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 579405008520 integrase; Provisional; Region: PRK09692 579405008521 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 579405008522 active site 579405008523 Int/Topo IB signature motif; other site 579405008524 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 579405008525 Major Facilitator Superfamily; Region: MFS_1; pfam07690 579405008526 putative substrate translocation pore; other site 579405008527 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 579405008528 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 579405008529 NADH(P)-binding; Region: NAD_binding_10; pfam13460 579405008530 NAD(P) binding site [chemical binding]; other site 579405008531 active site 579405008532 Winged helix-turn helix; Region: HTH_29; pfam13551 579405008533 Helix-turn-helix domain; Region: HTH_28; pfam13518 579405008534 Homeodomain-like domain; Region: HTH_32; pfam13565 579405008535 Integrase core domain; Region: rve; pfam00665 579405008536 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 579405008537 Integrase core domain; Region: rve_3; pfam13683 579405008538 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 579405008539 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405008540 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 579405008541 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 579405008542 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 579405008543 putative substrate translocation pore; other site 579405008544 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 579405008545 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 579405008546 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 579405008547 HlyD family secretion protein; Region: HlyD_3; pfam13437 579405008548 MarR family; Region: MarR_2; cl17246 579405008549 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 579405008550 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 579405008551 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 579405008552 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 579405008553 active site 579405008554 phosphorylation site [posttranslational modification] 579405008555 intermolecular recognition site; other site 579405008556 dimerization interface [polypeptide binding]; other site 579405008557 CAAX protease self-immunity; Region: Abi; pfam02517 579405008558 Methyltransferase domain; Region: Methyltransf_24; pfam13578 579405008559 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 579405008560 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 579405008561 dimerization interface [polypeptide binding]; other site 579405008562 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405008563 dimer interface [polypeptide binding]; other site 579405008564 putative CheW interface [polypeptide binding]; other site 579405008565 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 579405008566 D-galactonate transporter; Region: 2A0114; TIGR00893 579405008567 putative substrate translocation pore; other site 579405008568 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 579405008569 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 579405008570 active site pocket [active] 579405008571 Transcriptional regulators [Transcription]; Region: PurR; COG1609 579405008572 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 579405008573 DNA binding site [nucleotide binding] 579405008574 domain linker motif; other site 579405008575 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 579405008576 putative dimerization interface [polypeptide binding]; other site 579405008577 putative ligand binding site [chemical binding]; other site 579405008578 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 579405008579 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 579405008580 homodimer interface [polypeptide binding]; other site 579405008581 active site 579405008582 TDP-binding site; other site 579405008583 acceptor substrate-binding pocket; other site 579405008584 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 579405008585 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 579405008586 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 579405008587 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 579405008588 active site 579405008589 phosphorylation site [posttranslational modification] 579405008590 intermolecular recognition site; other site 579405008591 dimerization interface [polypeptide binding]; other site 579405008592 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 579405008593 DNA binding residues [nucleotide binding] 579405008594 dimerization interface [polypeptide binding]; other site 579405008595 MASE1; Region: MASE1; pfam05231 579405008596 Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]; Region: UhpB; COG3851 579405008597 Histidine kinase; Region: HisKA_3; pfam07730 579405008598 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 579405008599 ATP binding site [chemical binding]; other site 579405008600 Mg2+ binding site [ion binding]; other site 579405008601 G-X-G motif; other site 579405008602 regulatory protein UhpC; Provisional; Region: PRK11663 579405008603 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 579405008604 putative substrate translocation pore; other site 579405008605 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 579405008606 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 579405008607 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 579405008608 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 579405008609 dimer interface [polypeptide binding]; other site 579405008610 conserved gate region; other site 579405008611 putative PBP binding loops; other site 579405008612 ABC-ATPase subunit interface; other site 579405008613 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 579405008614 dimer interface [polypeptide binding]; other site 579405008615 conserved gate region; other site 579405008616 putative PBP binding loops; other site 579405008617 ABC-ATPase subunit interface; other site 579405008618 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 579405008619 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 579405008620 Walker A/P-loop; other site 579405008621 ATP binding site [chemical binding]; other site 579405008622 Q-loop/lid; other site 579405008623 ABC transporter signature motif; other site 579405008624 Walker B; other site 579405008625 D-loop; other site 579405008626 H-loop/switch region; other site 579405008627 TOBE domain; Region: TOBE_2; pfam08402 579405008628 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 579405008629 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405008630 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405008631 dimer interface [polypeptide binding]; other site 579405008632 putative CheW interface [polypeptide binding]; other site 579405008633 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 579405008634 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405008635 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 579405008636 substrate binding pocket [chemical binding]; other site 579405008637 dimerization interface [polypeptide binding]; other site 579405008638 putative aminotransferase; Provisional; Region: PRK12414 579405008639 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 579405008640 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405008641 homodimer interface [polypeptide binding]; other site 579405008642 catalytic residue [active] 579405008643 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 579405008644 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 579405008645 substrate binding pocket [chemical binding]; other site 579405008646 membrane-bound complex binding site; other site 579405008647 hinge residues; other site 579405008648 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 579405008649 active site 579405008650 SAM binding site [chemical binding]; other site 579405008651 homodimer interface [polypeptide binding]; other site 579405008652 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 579405008653 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 579405008654 [4Fe-4S] binding site [ion binding]; other site 579405008655 molybdopterin cofactor binding site; other site 579405008656 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 579405008657 molybdopterin cofactor binding site; other site 579405008658 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 579405008659 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 579405008660 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 579405008661 nitrite reductase subunit NirD; Provisional; Region: PRK14989 579405008662 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 579405008663 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 579405008664 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 579405008665 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 579405008666 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 579405008667 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 579405008668 Walker A/P-loop; other site 579405008669 ATP binding site [chemical binding]; other site 579405008670 Q-loop/lid; other site 579405008671 ABC transporter signature motif; other site 579405008672 Walker B; other site 579405008673 D-loop; other site 579405008674 H-loop/switch region; other site 579405008675 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 579405008676 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 579405008677 dimer interface [polypeptide binding]; other site 579405008678 conserved gate region; other site 579405008679 putative PBP binding loops; other site 579405008680 ABC-ATPase subunit interface; other site 579405008681 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 579405008682 NMT1-like family; Region: NMT1_2; pfam13379 579405008683 formyl-coenzyme A transferase; Provisional; Region: PRK05398 579405008684 CoA-transferase family III; Region: CoA_transf_3; pfam02515 579405008685 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 579405008686 PAS domain; Region: PAS_9; pfam13426 579405008687 putative active site [active] 579405008688 heme pocket [chemical binding]; other site 579405008689 formyl-coenzyme A transferase; Provisional; Region: PRK05398 579405008690 CoA-transferase family III; Region: CoA_transf_3; pfam02515 579405008691 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 579405008692 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 579405008693 PYR/PP interface [polypeptide binding]; other site 579405008694 dimer interface [polypeptide binding]; other site 579405008695 TPP binding site [chemical binding]; other site 579405008696 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 579405008697 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 579405008698 TPP-binding site; other site 579405008699 dimer interface [polypeptide binding]; other site 579405008700 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 579405008701 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 579405008702 putative substrate translocation pore; other site 579405008703 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405008704 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405008705 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 579405008706 putative dimerization interface [polypeptide binding]; other site 579405008707 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 579405008708 Nitrate and nitrite sensing; Region: NIT; pfam08376 579405008709 ANTAR domain; Region: ANTAR; pfam03861 579405008710 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 579405008711 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405008712 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405008713 dimer interface [polypeptide binding]; other site 579405008714 putative CheW interface [polypeptide binding]; other site 579405008715 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 579405008716 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 579405008717 Protein export membrane protein; Region: SecD_SecF; cl14618 579405008718 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 579405008719 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 579405008720 HlyD family secretion protein; Region: HlyD_3; pfam13437 579405008721 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 579405008722 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 579405008723 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 579405008724 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 579405008725 putative substrate translocation pore; other site 579405008726 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 579405008727 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 579405008728 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 579405008729 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 579405008730 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 579405008731 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 579405008732 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 579405008733 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 579405008734 [4Fe-4S] binding site [ion binding]; other site 579405008735 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 579405008736 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 579405008737 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 579405008738 molybdopterin cofactor binding site; other site 579405008739 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 579405008740 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405008741 DNA-binding site [nucleotide binding]; DNA binding site 579405008742 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 579405008743 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405008744 homodimer interface [polypeptide binding]; other site 579405008745 catalytic residue [active] 579405008746 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 579405008747 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 579405008748 catalytic triad [active] 579405008749 sigma70 family sigma factor YlaC; Region: YlaC; pfam10777 579405008750 Acylphosphatase; Region: Acylphosphatase; pfam00708 579405008751 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 579405008752 HypF finger; Region: zf-HYPF; pfam07503 579405008753 HypF finger; Region: zf-HYPF; pfam07503 579405008754 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 579405008755 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 579405008756 dimerization interface [polypeptide binding]; other site 579405008757 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 579405008758 ATP binding site [chemical binding]; other site 579405008759 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 579405008760 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 579405008761 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 579405008762 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 579405008763 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 579405008764 hydrogenase nickel incorporation protein; Validated; Region: hypA; PRK03681 579405008765 hydrogenase 2-specific chaperone; Provisional; Region: PRK10465 579405008766 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 579405008767 putative substrate-binding site; other site 579405008768 nickel binding site [ion binding]; other site 579405008769 hydrogenase 2 large subunit; Provisional; Region: PRK10467 579405008770 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 579405008771 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 579405008772 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 579405008773 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 579405008774 4Fe-4S binding domain; Region: Fer4_6; pfam12837 579405008775 hydrogenase 2 small subunit; Provisional; Region: PRK10468 579405008776 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 579405008777 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 579405008778 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 579405008779 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 579405008780 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405008781 Walker A/P-loop; other site 579405008782 ATP binding site [chemical binding]; other site 579405008783 ABC transporter signature motif; other site 579405008784 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 579405008785 Walker B; other site 579405008786 ABC transporter; Region: ABC_tran_2; pfam12848 579405008787 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 579405008788 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 579405008789 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 579405008790 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 579405008791 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 579405008792 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 579405008793 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 579405008794 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 579405008795 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 579405008796 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 579405008797 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 579405008798 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 579405008799 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 579405008800 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 579405008801 4Fe-4S binding domain; Region: Fer4; cl02805 579405008802 4Fe-4S binding domain; Region: Fer4; pfam00037 579405008803 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 579405008804 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 579405008805 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 579405008806 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 579405008807 catalytic loop [active] 579405008808 iron binding site [ion binding]; other site 579405008809 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 579405008810 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 579405008811 [4Fe-4S] binding site [ion binding]; other site 579405008812 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 579405008813 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 579405008814 SLBB domain; Region: SLBB; pfam10531 579405008815 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 579405008816 NADH dehydrogenase subunit E; Validated; Region: PRK07539 579405008817 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 579405008818 putative dimer interface [polypeptide binding]; other site 579405008819 [2Fe-2S] cluster binding site [ion binding]; other site 579405008820 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 579405008821 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 579405008822 NADH dehydrogenase subunit D; Validated; Region: PRK06075 579405008823 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 579405008824 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 579405008825 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 579405008826 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405008827 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 579405008828 putative dimerization interface [polypeptide binding]; other site 579405008829 aminotransferase AlaT; Validated; Region: PRK09265 579405008830 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 579405008831 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405008832 homodimer interface [polypeptide binding]; other site 579405008833 catalytic residue [active] 579405008834 5'-nucleotidase; Provisional; Region: PRK03826 579405008835 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 579405008836 transmembrane helices; other site 579405008837 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 579405008838 TrkA-C domain; Region: TrkA_C; pfam02080 579405008839 TrkA-C domain; Region: TrkA_C; pfam02080 579405008840 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 579405008841 putative phosphatase; Provisional; Region: PRK11587 579405008842 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 579405008843 active site 579405008844 motif I; other site 579405008845 hypothetical protein; Validated; Region: PRK05445 579405008846 hypothetical protein; Provisional; Region: PRK01816 579405008847 propionate/acetate kinase; Provisional; Region: PRK12379 579405008848 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 579405008849 phosphate acetyltransferase; Reviewed; Region: PRK05632 579405008850 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 579405008851 DRTGG domain; Region: DRTGG; pfam07085 579405008852 phosphate acetyltransferase; Region: pta; TIGR00651 579405008853 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 579405008854 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_38; cd04697 579405008855 nudix motif; other site 579405008856 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 579405008857 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 579405008858 active site 579405008859 metal binding site [ion binding]; metal-binding site 579405008860 homotetramer interface [polypeptide binding]; other site 579405008861 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 579405008862 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 579405008863 C-terminal domain interface [polypeptide binding]; other site 579405008864 GSH binding site (G-site) [chemical binding]; other site 579405008865 dimer interface [polypeptide binding]; other site 579405008866 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 579405008867 N-terminal domain interface [polypeptide binding]; other site 579405008868 putative dimer interface [polypeptide binding]; other site 579405008869 active site 579405008870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 579405008871 TIGR01777 family protein; Region: yfcH 579405008872 NAD(P) binding site [chemical binding]; other site 579405008873 active site 579405008874 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 579405008875 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 579405008876 Walker A/P-loop; other site 579405008877 ATP binding site [chemical binding]; other site 579405008878 Q-loop/lid; other site 579405008879 ABC transporter signature motif; other site 579405008880 Walker B; other site 579405008881 D-loop; other site 579405008882 H-loop/switch region; other site 579405008883 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 579405008884 dimer interface [polypeptide binding]; other site 579405008885 conserved gate region; other site 579405008886 putative PBP binding loops; other site 579405008887 ABC-ATPase subunit interface; other site 579405008888 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 579405008889 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 579405008890 dimer interface [polypeptide binding]; other site 579405008891 conserved gate region; other site 579405008892 putative PBP binding loops; other site 579405008893 ABC-ATPase subunit interface; other site 579405008894 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 579405008895 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 579405008896 substrate binding pocket [chemical binding]; other site 579405008897 membrane-bound complex binding site; other site 579405008898 hinge residues; other site 579405008899 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 579405008900 Flavoprotein; Region: Flavoprotein; pfam02441 579405008901 amidophosphoribosyltransferase; Provisional; Region: PRK09246 579405008902 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 579405008903 active site 579405008904 tetramer interface [polypeptide binding]; other site 579405008905 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 579405008906 active site 579405008907 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 579405008908 colicin V production protein; Provisional; Region: PRK10845 579405008909 cell division protein DedD; Provisional; Region: PRK11633 579405008910 Sporulation related domain; Region: SPOR; pfam05036 579405008911 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 579405008912 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 579405008913 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 579405008914 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 579405008915 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 579405008916 hypothetical protein; Provisional; Region: PRK10847 579405008917 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 579405008918 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 579405008919 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 579405008920 dimerization interface 3.5A [polypeptide binding]; other site 579405008921 active site 579405008922 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 579405008923 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 579405008924 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 579405008925 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 579405008926 ligand binding site [chemical binding]; other site 579405008927 NAD binding site [chemical binding]; other site 579405008928 catalytic site [active] 579405008929 homodimer interface [polypeptide binding]; other site 579405008930 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 579405008931 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 579405008932 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 579405008933 dimer interface [polypeptide binding]; other site 579405008934 phosphorylation site [posttranslational modification] 579405008935 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 579405008936 ATP binding site [chemical binding]; other site 579405008937 Mg2+ binding site [ion binding]; other site 579405008938 G-X-G motif; other site 579405008939 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 579405008940 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 579405008941 active site 579405008942 phosphorylation site [posttranslational modification] 579405008943 intermolecular recognition site; other site 579405008944 dimerization interface [polypeptide binding]; other site 579405008945 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 579405008946 DNA binding site [nucleotide binding] 579405008947 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 579405008948 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 579405008949 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 579405008950 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 579405008951 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 579405008952 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 579405008953 dimer interface [polypeptide binding]; other site 579405008954 active site 579405008955 Uncharacterized conserved protein [Function unknown]; Region: COG4121 579405008956 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 579405008957 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 579405008958 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405008959 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405008960 dimer interface [polypeptide binding]; other site 579405008961 putative CheW interface [polypeptide binding]; other site 579405008962 YfcL protein; Region: YfcL; pfam08891 579405008963 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 579405008964 hypothetical protein; Provisional; Region: PRK10621 579405008965 Predicted permeases [General function prediction only]; Region: COG0730 579405008966 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 579405008967 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 579405008968 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 579405008969 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 579405008970 Tetramer interface [polypeptide binding]; other site 579405008971 active site 579405008972 FMN-binding site [chemical binding]; other site 579405008973 HemK family putative methylases; Region: hemK_fam; TIGR00536 579405008974 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 579405008975 S-adenosylmethionine binding site [chemical binding]; other site 579405008976 hypothetical protein; Provisional; Region: PRK04946 579405008977 Smr domain; Region: Smr; pfam01713 579405008978 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 579405008979 catalytic core [active] 579405008980 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 579405008981 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 579405008982 substrate binding site [chemical binding]; other site 579405008983 oxyanion hole (OAH) forming residues; other site 579405008984 trimer interface [polypeptide binding]; other site 579405008985 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 579405008986 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 579405008987 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 579405008988 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 579405008989 dimer interface [polypeptide binding]; other site 579405008990 active site 579405008991 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 579405008992 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 579405008993 malate:quinone oxidoreductase; Validated; Region: PRK05257 579405008994 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 579405008995 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 579405008996 Methyltransferase domain; Region: Methyltransf_31; pfam13847 579405008997 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 579405008998 S-adenosylmethionine binding site [chemical binding]; other site 579405008999 hypothetical protein; Provisional; Region: PRK13687 579405009000 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 579405009001 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 579405009002 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 579405009003 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 579405009004 Putative motility protein; Region: YjfB_motility; pfam14070 579405009005 nitrogenase iron protein; Region: nifH; TIGR01287 579405009006 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 579405009007 Nucleotide-binding sites [chemical binding]; other site 579405009008 Walker A motif; other site 579405009009 Switch I region of nucleotide binding site; other site 579405009010 Fe4S4 binding sites [ion binding]; other site 579405009011 Switch II region of nucleotide binding site; other site 579405009012 nitrogenase iron-iron protein, alpha chain; Region: ANFD; TIGR01861 579405009013 Nitrogenase_VFe_alpha -like: Nitrogenase VFe protein, alpha subunit like. This group contains proteins similar to the alpha subunits of, the VFe protein of the vanadium-dependent (V-) nitrogenase and the FeFe protein of the iron only (Fe-) nitrogenase...; Region: Nitrogenase_VFe_alpha; cd01977 579405009014 Vanadium/alternative nitrogenase delta subunit; Region: AnfG_VnfG; pfam03139 579405009015 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 579405009016 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 579405009017 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 579405009018 Iron only nitrogenase protein AnfO (AnfO_nitrog); Region: AnfO_nitrog; cl17112 579405009019 Nif-specific regulatory protein; Region: nifA; TIGR01817 579405009020 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 579405009021 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 579405009022 Walker A motif; other site 579405009023 ATP binding site [chemical binding]; other site 579405009024 Walker B motif; other site 579405009025 arginine finger; other site 579405009026 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 579405009027 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 579405009028 active site 579405009029 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 579405009030 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 579405009031 putative trimer interface [polypeptide binding]; other site 579405009032 putative CoA binding site [chemical binding]; other site 579405009033 Flavin Reductases; Region: FlaRed; cl00801 579405009034 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 579405009035 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 579405009036 S-adenosylmethionine binding site [chemical binding]; other site 579405009037 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 579405009038 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 579405009039 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 579405009040 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 579405009041 dimer interface [polypeptide binding]; other site 579405009042 conserved gate region; other site 579405009043 putative PBP binding loops; other site 579405009044 ABC-ATPase subunit interface; other site 579405009045 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 579405009046 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 579405009047 dimer interface [polypeptide binding]; other site 579405009048 conserved gate region; other site 579405009049 putative PBP binding loops; other site 579405009050 ABC-ATPase subunit interface; other site 579405009051 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 579405009052 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_5; cd08511 579405009053 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 579405009054 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405009055 Walker A/P-loop; other site 579405009056 ATP binding site [chemical binding]; other site 579405009057 Q-loop/lid; other site 579405009058 ABC transporter signature motif; other site 579405009059 Walker B; other site 579405009060 D-loop; other site 579405009061 H-loop/switch region; other site 579405009062 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 579405009063 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 579405009064 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405009065 Walker A/P-loop; other site 579405009066 ATP binding site [chemical binding]; other site 579405009067 Q-loop/lid; other site 579405009068 ABC transporter signature motif; other site 579405009069 Walker B; other site 579405009070 D-loop; other site 579405009071 H-loop/switch region; other site 579405009072 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 579405009073 Transcriptional regulators [Transcription]; Region: FadR; COG2186 579405009074 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405009075 DNA-binding site [nucleotide binding]; DNA binding site 579405009076 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 579405009077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 579405009078 Nucleoside recognition; Region: Gate; pfam07670 579405009079 hypothetical protein; Provisional; Region: PRK10519 579405009080 M20 Peptidase Aminoacylase 1 amhX_like subfamily; Region: M20_Acy1_amhX_like; cd08018 579405009081 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 579405009082 metal binding site [ion binding]; metal-binding site 579405009083 putative dimer interface [polypeptide binding]; other site 579405009084 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 579405009085 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 579405009086 WHG domain; Region: WHG; pfam13305 579405009087 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 579405009088 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 579405009089 putative active site [active] 579405009090 metal binding site [ion binding]; metal-binding site 579405009091 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 579405009092 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 579405009093 putative active site pocket [active] 579405009094 putative metal binding site [ion binding]; other site 579405009095 putative oxidoreductase; Provisional; Region: PRK10083 579405009096 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 579405009097 putative NAD(P) binding site [chemical binding]; other site 579405009098 catalytic Zn binding site [ion binding]; other site 579405009099 structural Zn binding site [ion binding]; other site 579405009100 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 579405009101 metabolite-proton symporter; Region: 2A0106; TIGR00883 579405009102 putative substrate translocation pore; other site 579405009103 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 579405009104 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 579405009105 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 579405009106 Transcriptional regulators [Transcription]; Region: GntR; COG1802 579405009107 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405009108 DNA-binding site [nucleotide binding]; DNA binding site 579405009109 FCD domain; Region: FCD; pfam07729 579405009110 urocanate hydratase; Provisional; Region: PRK05414 579405009111 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 579405009112 active sites [active] 579405009113 tetramer interface [polypeptide binding]; other site 579405009114 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 579405009115 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 579405009116 Walker A/P-loop; other site 579405009117 ATP binding site [chemical binding]; other site 579405009118 Q-loop/lid; other site 579405009119 ABC transporter signature motif; other site 579405009120 Walker B; other site 579405009121 D-loop; other site 579405009122 H-loop/switch region; other site 579405009123 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 579405009124 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 579405009125 dimer interface [polypeptide binding]; other site 579405009126 conserved gate region; other site 579405009127 putative PBP binding loops; other site 579405009128 ABC-ATPase subunit interface; other site 579405009129 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 579405009130 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 579405009131 substrate binding pocket [chemical binding]; other site 579405009132 membrane-bound complex binding site; other site 579405009133 hinge residues; other site 579405009134 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 579405009135 active site 579405009136 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 579405009137 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405009138 DNA-binding site [nucleotide binding]; DNA binding site 579405009139 UTRA domain; Region: UTRA; pfam07702 579405009140 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 579405009141 active sites [active] 579405009142 tetramer interface [polypeptide binding]; other site 579405009143 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 579405009144 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 579405009145 Walker A/P-loop; other site 579405009146 ATP binding site [chemical binding]; other site 579405009147 Q-loop/lid; other site 579405009148 ABC transporter signature motif; other site 579405009149 Walker B; other site 579405009150 D-loop; other site 579405009151 H-loop/switch region; other site 579405009152 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 579405009153 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 579405009154 dimer interface [polypeptide binding]; other site 579405009155 conserved gate region; other site 579405009156 putative PBP binding loops; other site 579405009157 ABC-ATPase subunit interface; other site 579405009158 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 579405009159 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 579405009160 dimer interface [polypeptide binding]; other site 579405009161 conserved gate region; other site 579405009162 putative PBP binding loops; other site 579405009163 ABC-ATPase subunit interface; other site 579405009164 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 579405009165 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 579405009166 substrate binding pocket [chemical binding]; other site 579405009167 membrane-bound complex binding site; other site 579405009168 hinge residues; other site 579405009169 HutD; Region: HutD; cl01532 579405009170 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 579405009171 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 579405009172 active site 579405009173 imidazolonepropionase; Validated; Region: PRK09356 579405009174 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 579405009175 active site 579405009176 N-formylglutamate amidohydrolase; Region: FGase; cl01522 579405009177 Nitrate and nitrite sensing; Region: NIT; pfam08376 579405009178 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 579405009179 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 579405009180 dimerization interface [polypeptide binding]; other site 579405009181 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405009182 dimer interface [polypeptide binding]; other site 579405009183 putative CheW interface [polypeptide binding]; other site 579405009184 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 579405009185 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 579405009186 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 579405009187 homodimer interface [polypeptide binding]; other site 579405009188 NADP binding site [chemical binding]; other site 579405009189 substrate binding site [chemical binding]; other site 579405009190 ribosome-associated protein; Provisional; Region: PRK11507 579405009191 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 579405009192 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 579405009193 active site 579405009194 HIGH motif; other site 579405009195 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 579405009196 KMSKS motif; other site 579405009197 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 579405009198 tRNA binding surface [nucleotide binding]; other site 579405009199 anticodon binding site; other site 579405009200 DoxX; Region: DoxX; pfam07681 579405009201 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 579405009202 substrate binding site [chemical binding]; other site 579405009203 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 579405009204 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 579405009205 putative active site [active] 579405009206 putative metal binding site [ion binding]; other site 579405009207 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 579405009208 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 579405009209 ATP-grasp domain; Region: ATP-grasp; pfam02222 579405009210 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 579405009211 serine transporter; Region: stp; TIGR00814 579405009212 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 579405009213 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 579405009214 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 579405009215 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 579405009216 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 579405009217 non-specific DNA binding site [nucleotide binding]; other site 579405009218 salt bridge; other site 579405009219 sequence-specific DNA binding site [nucleotide binding]; other site 579405009220 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 579405009221 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 579405009222 Walker A/P-loop; other site 579405009223 ATP binding site [chemical binding]; other site 579405009224 Q-loop/lid; other site 579405009225 ABC transporter signature motif; other site 579405009226 Walker B; other site 579405009227 D-loop; other site 579405009228 H-loop/switch region; other site 579405009229 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 579405009230 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 579405009231 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 579405009232 ABC-ATPase subunit interface; other site 579405009233 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 579405009234 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 579405009235 conserved gate region; other site 579405009236 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 579405009237 ABC-ATPase subunit interface; other site 579405009238 polyphosphate kinase; Provisional; Region: PRK05443 579405009239 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 579405009240 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 579405009241 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 579405009242 domain interface [polypeptide binding]; other site 579405009243 active site 579405009244 catalytic site [active] 579405009245 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 579405009246 domain interface [polypeptide binding]; other site 579405009247 active site 579405009248 catalytic site [active] 579405009249 exopolyphosphatase; Provisional; Region: PRK10854 579405009250 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 579405009251 nucleotide binding site [chemical binding]; other site 579405009252 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 579405009253 hypothetical protein; Provisional; Region: PRK11019 579405009254 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 579405009255 Ligand Binding Site [chemical binding]; other site 579405009256 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 579405009257 Isochorismatase family; Region: Isochorismatase; pfam00857 579405009258 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; cl00220 579405009259 catalytic triad [active] 579405009260 conserved cis-peptide bond; other site 579405009261 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 579405009262 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 579405009263 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 579405009264 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 579405009265 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 579405009266 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 579405009267 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 579405009268 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 579405009269 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 579405009270 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 579405009271 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 579405009272 Walker A/P-loop; other site 579405009273 ATP binding site [chemical binding]; other site 579405009274 Q-loop/lid; other site 579405009275 ABC transporter signature motif; other site 579405009276 Walker B; other site 579405009277 D-loop; other site 579405009278 H-loop/switch region; other site 579405009279 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 579405009280 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 579405009281 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 579405009282 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 579405009283 NAD binding site [chemical binding]; other site 579405009284 putative substrate binding site 2 [chemical binding]; other site 579405009285 putative substrate binding site 1 [chemical binding]; other site 579405009286 active site 579405009287 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 579405009288 YccA-like proteins; Region: YccA_like; cd10433 579405009289 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 579405009290 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 579405009291 acylphosphatase; Provisional; Region: PRK14426 579405009292 heat shock protein HspQ; Provisional; Region: PRK14129 579405009293 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 579405009294 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 579405009295 active site 579405009296 dimer interfaces [polypeptide binding]; other site 579405009297 catalytic residues [active] 579405009298 DNA helicase IV; Provisional; Region: helD; PRK11054 579405009299 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 579405009300 Part of AAA domain; Region: AAA_19; pfam13245 579405009301 Family description; Region: UvrD_C_2; pfam13538 579405009302 hypothetical protein; Provisional; Region: PRK11770 579405009303 Domain of unknown function (DUF307); Region: DUF307; pfam03733 579405009304 Domain of unknown function (DUF307); Region: DUF307; pfam03733 579405009305 TIGR01666 family membrane protein; Region: YCCS 579405009306 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 579405009307 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 579405009308 Winged helix-turn helix; Region: HTH_29; pfam13551 579405009309 Helix-turn-helix domain; Region: HTH_28; pfam13518 579405009310 Homeodomain-like domain; Region: HTH_32; pfam13565 579405009311 Integrase core domain; Region: rve; pfam00665 579405009312 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 579405009313 Integrase core domain; Region: rve_3; pfam13683 579405009314 TfoX N-terminal domain; Region: TfoX_N; pfam04993 579405009315 TfoX C-terminal domain; Region: TfoX_C; pfam04994 579405009316 SOS cell division inhibitor; Provisional; Region: PRK10595 579405009317 outer membrane protein A; Reviewed; Region: PRK10808 579405009318 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 579405009319 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 579405009320 ligand binding site [chemical binding]; other site 579405009321 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 579405009322 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 579405009323 active site 579405009324 catalytic tetrad [active] 579405009325 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 579405009326 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 579405009327 Nucleoside recognition; Region: Gate; pfam07670 579405009328 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 579405009329 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 579405009330 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 579405009331 HlyD family secretion protein; Region: HlyD_3; pfam13437 579405009332 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 579405009333 Protein export membrane protein; Region: SecD_SecF; cl14618 579405009334 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 579405009335 putative transporter; Provisional; Region: PRK10504 579405009336 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 579405009337 putative substrate translocation pore; other site 579405009338 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 579405009339 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 579405009340 dimerization interface [polypeptide binding]; other site 579405009341 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 579405009342 dimer interface [polypeptide binding]; other site 579405009343 phosphorylation site [posttranslational modification] 579405009344 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 579405009345 ATP binding site [chemical binding]; other site 579405009346 Mg2+ binding site [ion binding]; other site 579405009347 G-X-G motif; other site 579405009348 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 579405009349 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 579405009350 active site 579405009351 phosphorylation site [posttranslational modification] 579405009352 intermolecular recognition site; other site 579405009353 dimerization interface [polypeptide binding]; other site 579405009354 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 579405009355 DNA binding site [nucleotide binding] 579405009356 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 579405009357 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 579405009358 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 579405009359 putative dimer interface [polypeptide binding]; other site 579405009360 N-terminal domain interface [polypeptide binding]; other site 579405009361 putative substrate binding pocket (H-site) [chemical binding]; other site 579405009362 putative protease; Provisional; Region: PRK15452 579405009363 Peptidase family U32; Region: Peptidase_U32; pfam01136 579405009364 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 579405009365 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 579405009366 dimer interface [polypeptide binding]; other site 579405009367 substrate binding site [chemical binding]; other site 579405009368 ATP binding site [chemical binding]; other site 579405009369 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 579405009370 substrate binding site [chemical binding]; other site 579405009371 multimerization interface [polypeptide binding]; other site 579405009372 ATP binding site [chemical binding]; other site 579405009373 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 579405009374 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 579405009375 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 579405009376 short chain dehydrogenase; Validated; Region: PRK06182 579405009377 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 579405009378 NADP binding site [chemical binding]; other site 579405009379 active site 579405009380 steroid binding site; other site 579405009381 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 579405009382 putative lipid binding site [chemical binding]; other site 579405009383 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 579405009384 YCII-related domain; Region: YCII; cl00999 579405009385 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 579405009386 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 579405009387 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 579405009388 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 579405009389 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 579405009390 conserved cys residue [active] 579405009391 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405009392 Uncharacterized conserved protein [Function unknown]; Region: COG3287 579405009393 FIST N domain; Region: FIST; pfam08495 579405009394 FIST C domain; Region: FIST_C; pfam10442 579405009395 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 579405009396 ATP binding site [chemical binding]; other site 579405009397 Mg2+ binding site [ion binding]; other site 579405009398 G-X-G motif; other site 579405009399 Response regulator receiver domain; Region: Response_reg; pfam00072 579405009400 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 579405009401 active site 579405009402 phosphorylation site [posttranslational modification] 579405009403 intermolecular recognition site; other site 579405009404 dimerization interface [polypeptide binding]; other site 579405009405 HDOD domain; Region: HDOD; pfam08668 579405009406 Response regulator receiver domain; Region: Response_reg; pfam00072 579405009407 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 579405009408 active site 579405009409 phosphorylation site [posttranslational modification] 579405009410 intermolecular recognition site; other site 579405009411 dimerization interface [polypeptide binding]; other site 579405009412 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 579405009413 GMP synthase; Reviewed; Region: guaA; PRK00074 579405009414 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 579405009415 AMP/PPi binding site [chemical binding]; other site 579405009416 candidate oxyanion hole; other site 579405009417 catalytic triad [active] 579405009418 potential glutamine specificity residues [chemical binding]; other site 579405009419 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 579405009420 ATP Binding subdomain [chemical binding]; other site 579405009421 Ligand Binding sites [chemical binding]; other site 579405009422 Dimerization subdomain; other site 579405009423 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 579405009424 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 579405009425 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 579405009426 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 579405009427 active site 579405009428 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 579405009429 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 579405009430 generic binding surface II; other site 579405009431 generic binding surface I; other site 579405009432 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 579405009433 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 579405009434 active site 579405009435 Zn binding site [ion binding]; other site 579405009436 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 579405009437 GTP-binding protein Der; Reviewed; Region: PRK00093 579405009438 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 579405009439 G1 box; other site 579405009440 GTP/Mg2+ binding site [chemical binding]; other site 579405009441 Switch I region; other site 579405009442 G2 box; other site 579405009443 Switch II region; other site 579405009444 G3 box; other site 579405009445 G4 box; other site 579405009446 G5 box; other site 579405009447 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 579405009448 G1 box; other site 579405009449 GTP/Mg2+ binding site [chemical binding]; other site 579405009450 Switch I region; other site 579405009451 G2 box; other site 579405009452 G3 box; other site 579405009453 Switch II region; other site 579405009454 G4 box; other site 579405009455 G5 box; other site 579405009456 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 579405009457 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 579405009458 Trp docking motif [polypeptide binding]; other site 579405009459 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 579405009460 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 579405009461 TPR motif; other site 579405009462 binding surface 579405009463 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 579405009464 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 579405009465 dimer interface [polypeptide binding]; other site 579405009466 motif 1; other site 579405009467 active site 579405009468 motif 2; other site 579405009469 motif 3; other site 579405009470 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 579405009471 anticodon binding site; other site 579405009472 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 579405009473 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 579405009474 cytoskeletal protein RodZ; Provisional; Region: PRK10856 579405009475 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 579405009476 non-specific DNA binding site [nucleotide binding]; other site 579405009477 salt bridge; other site 579405009478 sequence-specific DNA binding site [nucleotide binding]; other site 579405009479 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 579405009480 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 579405009481 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 579405009482 binding surface 579405009483 TPR motif; other site 579405009484 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 579405009485 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 579405009486 FeS/SAM binding site; other site 579405009487 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 579405009488 active site 579405009489 multimer interface [polypeptide binding]; other site 579405009490 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 579405009491 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 579405009492 active site residue [active] 579405009493 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 579405009494 active site residue [active] 579405009495 enhanced serine sensitivity protein SseB; Provisional; Region: PRK11611 579405009496 aminopeptidase B; Provisional; Region: PRK05015 579405009497 Peptidase; Region: DUF3663; pfam12404 579405009498 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 579405009499 interface (dimer of trimers) [polypeptide binding]; other site 579405009500 Substrate-binding/catalytic site; other site 579405009501 Zn-binding sites [ion binding]; other site 579405009502 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 579405009503 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 579405009504 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 579405009505 catalytic loop [active] 579405009506 iron binding site [ion binding]; other site 579405009507 chaperone protein HscA; Provisional; Region: hscA; PRK05183 579405009508 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 579405009509 nucleotide binding site [chemical binding]; other site 579405009510 putative NEF/HSP70 interaction site [polypeptide binding]; other site 579405009511 SBD interface [polypeptide binding]; other site 579405009512 co-chaperone HscB; Provisional; Region: hscB; PRK05014 579405009513 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 579405009514 HSP70 interaction site [polypeptide binding]; other site 579405009515 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 579405009516 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 579405009517 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 579405009518 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 579405009519 trimerization site [polypeptide binding]; other site 579405009520 active site 579405009521 cysteine desulfurase; Provisional; Region: PRK14012 579405009522 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 579405009523 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 579405009524 catalytic residue [active] 579405009525 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 579405009526 Rrf2 family protein; Region: rrf2_super; TIGR00738 579405009527 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 579405009528 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 579405009529 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 579405009530 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 579405009531 active site 579405009532 dimerization interface [polypeptide binding]; other site 579405009533 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 579405009534 intersubunit interface [polypeptide binding]; other site 579405009535 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 579405009536 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 579405009537 dimer interface [polypeptide binding]; other site 579405009538 putative PBP binding regions; other site 579405009539 ABC-ATPase subunit interface; other site 579405009540 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 579405009541 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 579405009542 Walker A/P-loop; other site 579405009543 ATP binding site [chemical binding]; other site 579405009544 Q-loop/lid; other site 579405009545 ABC transporter signature motif; other site 579405009546 Walker B; other site 579405009547 D-loop; other site 579405009548 H-loop/switch region; other site 579405009549 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 579405009550 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 579405009551 putative ligand binding residues [chemical binding]; other site 579405009552 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 579405009553 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 579405009554 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 579405009555 MFS_1 like family; Region: MFS_1_like; pfam12832 579405009556 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 579405009557 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 579405009558 dimer interface [polypeptide binding]; other site 579405009559 active site 579405009560 glycine-pyridoxal phosphate binding site [chemical binding]; other site 579405009561 folate binding site [chemical binding]; other site 579405009562 Pectate lyase [Carbohydrate transport and metabolism]; Region: PelB; COG3866 579405009563 Pectate lyase; Region: Pec_lyase_C; pfam00544 579405009564 Pectate lyase; Region: Pec_lyase_C; cl01593 579405009565 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 579405009566 active site 579405009567 catalytic triad [active] 579405009568 Pectinesterase; Region: Pectinesterase; pfam01095 579405009569 putative pectinesterase; Region: PLN02432; cl01911 579405009570 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 579405009571 Nitrogen regulatory protein P-II; Region: P-II; smart00938 579405009572 response regulator GlrR; Provisional; Region: PRK15115 579405009573 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 579405009574 active site 579405009575 phosphorylation site [posttranslational modification] 579405009576 intermolecular recognition site; other site 579405009577 dimerization interface [polypeptide binding]; other site 579405009578 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 579405009579 Walker A motif; other site 579405009580 ATP binding site [chemical binding]; other site 579405009581 Walker B motif; other site 579405009582 arginine finger; other site 579405009583 hypothetical protein; Provisional; Region: PRK10722 579405009584 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 579405009585 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 579405009586 dimer interface [polypeptide binding]; other site 579405009587 phosphorylation site [posttranslational modification] 579405009588 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 579405009589 ATP binding site [chemical binding]; other site 579405009590 Mg2+ binding site [ion binding]; other site 579405009591 G-X-G motif; other site 579405009592 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 579405009593 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 579405009594 dimerization interface [polypeptide binding]; other site 579405009595 ATP binding site [chemical binding]; other site 579405009596 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 579405009597 dimerization interface [polypeptide binding]; other site 579405009598 ATP binding site [chemical binding]; other site 579405009599 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 579405009600 putative active site [active] 579405009601 catalytic triad [active] 579405009602 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 579405009603 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 579405009604 substrate binding pocket [chemical binding]; other site 579405009605 membrane-bound complex binding site; other site 579405009606 hinge residues; other site 579405009607 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 579405009608 N-acetyl-D-glucosamine binding site [chemical binding]; other site 579405009609 catalytic residue [active] 579405009610 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 579405009611 nucleoside/Zn binding site; other site 579405009612 dimer interface [polypeptide binding]; other site 579405009613 catalytic motif [active] 579405009614 hypothetical protein; Provisional; Region: PRK11590 579405009615 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 579405009616 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 579405009617 putative active site [active] 579405009618 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 579405009619 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 579405009620 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 579405009621 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 579405009622 Walker A/P-loop; other site 579405009623 ATP binding site [chemical binding]; other site 579405009624 Q-loop/lid; other site 579405009625 ABC transporter signature motif; other site 579405009626 Walker B; other site 579405009627 D-loop; other site 579405009628 H-loop/switch region; other site 579405009629 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 579405009630 PAS domain; Region: PAS_9; pfam13426 579405009631 putative active site [active] 579405009632 heme pocket [chemical binding]; other site 579405009633 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 579405009634 GAF domain; Region: GAF; pfam01590 579405009635 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 579405009636 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 579405009637 metal binding site [ion binding]; metal-binding site 579405009638 active site 579405009639 I-site; other site 579405009640 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 579405009641 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 579405009642 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 579405009643 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 579405009644 active site 579405009645 hydrophilic channel; other site 579405009646 dimerization interface [polypeptide binding]; other site 579405009647 catalytic residues [active] 579405009648 active site lid [active] 579405009649 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 579405009650 Recombination protein O N terminal; Region: RecO_N; pfam11967 579405009651 Recombination protein O C terminal; Region: RecO_C; pfam02565 579405009652 GTPase Era; Reviewed; Region: era; PRK00089 579405009653 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 579405009654 G1 box; other site 579405009655 GTP/Mg2+ binding site [chemical binding]; other site 579405009656 Switch I region; other site 579405009657 G2 box; other site 579405009658 Switch II region; other site 579405009659 G3 box; other site 579405009660 G4 box; other site 579405009661 G5 box; other site 579405009662 KH domain; Region: KH_2; pfam07650 579405009663 ribonuclease III; Reviewed; Region: rnc; PRK00102 579405009664 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 579405009665 dimerization interface [polypeptide binding]; other site 579405009666 active site 579405009667 metal binding site [ion binding]; metal-binding site 579405009668 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 579405009669 dsRNA binding site [nucleotide binding]; other site 579405009670 signal peptidase I; Provisional; Region: PRK10861 579405009671 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 579405009672 Catalytic site [active] 579405009673 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 579405009674 GTP-binding protein LepA; Provisional; Region: PRK05433 579405009675 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 579405009676 G1 box; other site 579405009677 putative GEF interaction site [polypeptide binding]; other site 579405009678 GTP/Mg2+ binding site [chemical binding]; other site 579405009679 Switch I region; other site 579405009680 G2 box; other site 579405009681 G3 box; other site 579405009682 Switch II region; other site 579405009683 G4 box; other site 579405009684 G5 box; other site 579405009685 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 579405009686 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 579405009687 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 579405009688 SoxR reducing system protein RseC; Provisional; Region: PRK10862 579405009689 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 579405009690 anti-sigma E factor; Provisional; Region: rseB; PRK09455 579405009691 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 579405009692 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 579405009693 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 579405009694 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 579405009695 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 579405009696 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 579405009697 DNA binding residues [nucleotide binding] 579405009698 L-aspartate oxidase; Provisional; Region: PRK09077 579405009699 L-aspartate oxidase; Provisional; Region: PRK06175 579405009700 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 579405009701 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 579405009702 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 579405009703 S-adenosylmethionine binding site [chemical binding]; other site 579405009704 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 579405009705 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 579405009706 ATP binding site [chemical binding]; other site 579405009707 Mg++ binding site [ion binding]; other site 579405009708 motif III; other site 579405009709 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 579405009710 nucleotide binding region [chemical binding]; other site 579405009711 ATP-binding site [chemical binding]; other site 579405009712 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 579405009713 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 579405009714 ligand binding site [chemical binding]; other site 579405009715 active site 579405009716 UGI interface [polypeptide binding]; other site 579405009717 catalytic site [active] 579405009718 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 579405009719 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 579405009720 homodimer interface [polypeptide binding]; other site 579405009721 substrate-cofactor binding pocket; other site 579405009722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405009723 catalytic residue [active] 579405009724 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 579405009725 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 579405009726 active site 579405009727 HIGH motif; other site 579405009728 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 579405009729 active site 579405009730 KMSKS motif; other site 579405009731 DoxX; Region: DoxX; pfam07681 579405009732 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 579405009733 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 579405009734 Walker A/P-loop; other site 579405009735 ATP binding site [chemical binding]; other site 579405009736 Q-loop/lid; other site 579405009737 ABC transporter signature motif; other site 579405009738 Walker B; other site 579405009739 D-loop; other site 579405009740 H-loop/switch region; other site 579405009741 TOBE-like domain; Region: TOBE_3; pfam12857 579405009742 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 579405009743 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 579405009744 dimer interface [polypeptide binding]; other site 579405009745 conserved gate region; other site 579405009746 putative PBP binding loops; other site 579405009747 ABC-ATPase subunit interface; other site 579405009748 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 579405009749 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 579405009750 dimer interface [polypeptide binding]; other site 579405009751 conserved gate region; other site 579405009752 putative PBP binding loops; other site 579405009753 ABC-ATPase subunit interface; other site 579405009754 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 579405009755 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 579405009756 substrate binding pocket [chemical binding]; other site 579405009757 membrane-bound complex binding site; other site 579405009758 hinge residues; other site 579405009759 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 579405009760 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 579405009761 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 579405009762 serine endoprotease; Provisional; Region: PRK10942 579405009763 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 579405009764 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 579405009765 protein binding site [polypeptide binding]; other site 579405009766 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 579405009767 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 579405009768 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 579405009769 Zn2+ binding site [ion binding]; other site 579405009770 Mg2+ binding site [ion binding]; other site 579405009771 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 579405009772 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 579405009773 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 579405009774 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 579405009775 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 579405009776 cobalamin binding residues [chemical binding]; other site 579405009777 putative BtuC binding residues; other site 579405009778 dimer interface [polypeptide binding]; other site 579405009779 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 579405009780 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 579405009781 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 579405009782 Cl- selectivity filter; other site 579405009783 Cl- binding residues [ion binding]; other site 579405009784 pore gating glutamate residue; other site 579405009785 dimer interface [polypeptide binding]; other site 579405009786 H+/Cl- coupling transport residue; other site 579405009787 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 579405009788 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 579405009789 inhibitor-cofactor binding pocket; inhibition site 579405009790 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405009791 catalytic residue [active] 579405009792 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 579405009793 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 579405009794 ABC-ATPase subunit interface; other site 579405009795 dimer interface [polypeptide binding]; other site 579405009796 putative PBP binding regions; other site 579405009797 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 579405009798 ABC-ATPase subunit interface; other site 579405009799 dimer interface [polypeptide binding]; other site 579405009800 putative PBP binding regions; other site 579405009801 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 579405009802 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 579405009803 siderophore binding site; other site 579405009804 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 579405009805 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 579405009806 Walker A/P-loop; other site 579405009807 ATP binding site [chemical binding]; other site 579405009808 Q-loop/lid; other site 579405009809 ABC transporter signature motif; other site 579405009810 Walker B; other site 579405009811 D-loop; other site 579405009812 H-loop/switch region; other site 579405009813 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 579405009814 Transglycosylase; Region: Transgly; pfam00912 579405009815 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 579405009816 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 579405009817 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 579405009818 ATP binding site [chemical binding]; other site 579405009819 putative Mg++ binding site [ion binding]; other site 579405009820 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 579405009821 nucleotide binding region [chemical binding]; other site 579405009822 ATP-binding site [chemical binding]; other site 579405009823 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 579405009824 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 579405009825 2'-5' RNA ligase; Provisional; Region: PRK15124 579405009826 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 579405009827 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 579405009828 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 579405009829 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 579405009830 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 579405009831 active site 579405009832 nucleotide binding site [chemical binding]; other site 579405009833 HIGH motif; other site 579405009834 KMSKS motif; other site 579405009835 poly(A) polymerase; Region: pcnB; TIGR01942 579405009836 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 579405009837 active site 579405009838 NTP binding site [chemical binding]; other site 579405009839 metal binding triad [ion binding]; metal-binding site 579405009840 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 579405009841 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 579405009842 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 579405009843 catalytic center binding site [active] 579405009844 ATP binding site [chemical binding]; other site 579405009845 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 579405009846 oligomerization interface [polypeptide binding]; other site 579405009847 active site 579405009848 metal binding site [ion binding]; metal-binding site 579405009849 Pantoate-beta-alanine ligase; Region: PanC; cd00560 579405009850 pantoate--beta-alanine ligase; Region: panC; TIGR00018 579405009851 active site 579405009852 ATP-binding site [chemical binding]; other site 579405009853 pantoate-binding site; other site 579405009854 HXXH motif; other site 579405009855 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 579405009856 tetramerization interface [polypeptide binding]; other site 579405009857 active site 579405009858 inner membrane transport permease; Provisional; Region: PRK15066 579405009859 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 579405009860 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 579405009861 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 579405009862 Walker A/P-loop; other site 579405009863 ATP binding site [chemical binding]; other site 579405009864 Q-loop/lid; other site 579405009865 ABC transporter signature motif; other site 579405009866 Walker B; other site 579405009867 D-loop; other site 579405009868 H-loop/switch region; other site 579405009869 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 579405009870 active site clefts [active] 579405009871 zinc binding site [ion binding]; other site 579405009872 dimer interface [polypeptide binding]; other site 579405009873 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 579405009874 active site 579405009875 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 579405009876 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405009877 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 579405009878 Coenzyme A binding pocket [chemical binding]; other site 579405009879 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 579405009880 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 579405009881 Walker A/P-loop; other site 579405009882 ATP binding site [chemical binding]; other site 579405009883 Q-loop/lid; other site 579405009884 ABC transporter signature motif; other site 579405009885 Walker B; other site 579405009886 D-loop; other site 579405009887 H-loop/switch region; other site 579405009888 TOBE domain; Region: TOBE_2; pfam08402 579405009889 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 579405009890 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 579405009891 dimer interface [polypeptide binding]; other site 579405009892 conserved gate region; other site 579405009893 putative PBP binding loops; other site 579405009894 ABC-ATPase subunit interface; other site 579405009895 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 579405009896 spermidine synthase; Provisional; Region: PRK00811 579405009897 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 579405009898 S-adenosylmethionine binding site [chemical binding]; other site 579405009899 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 579405009900 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 579405009901 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 579405009902 active site 579405009903 catalytic site [active] 579405009904 substrate binding site [chemical binding]; other site 579405009905 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 579405009906 RNA/DNA hybrid binding site [nucleotide binding]; other site 579405009907 active site 579405009908 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 579405009909 S-adenosylmethionine binding site [chemical binding]; other site 579405009910 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 579405009911 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 579405009912 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 579405009913 N-acetyl-D-glucosamine binding site [chemical binding]; other site 579405009914 catalytic residue [active] 579405009915 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 579405009916 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 579405009917 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 579405009918 Transposase; Region: HTH_Tnp_1; cl17663 579405009919 hypothetical protein; Provisional; Region: PRK05421 579405009920 putative catalytic site [active] 579405009921 putative metal binding site [ion binding]; other site 579405009922 putative catalytic site [active] 579405009923 putative phosphate binding site [ion binding]; other site 579405009924 putative phosphate binding site [ion binding]; other site 579405009925 putative metal binding site [ion binding]; other site 579405009926 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 579405009927 Transposase; Region: HTH_Tnp_1; pfam01527 579405009928 protein disaggregation chaperone; Provisional; Region: PRK10865 579405009929 Clp amino terminal domain; Region: Clp_N; pfam02861 579405009930 Clp amino terminal domain; Region: Clp_N; pfam02861 579405009931 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 579405009932 Walker A motif; other site 579405009933 ATP binding site [chemical binding]; other site 579405009934 Walker B motif; other site 579405009935 arginine finger; other site 579405009936 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 579405009937 Walker A motif; other site 579405009938 ATP binding site [chemical binding]; other site 579405009939 Walker B motif; other site 579405009940 arginine finger; other site 579405009941 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 579405009942 hypothetical protein; Provisional; Region: PRK10723 579405009943 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 579405009944 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 579405009945 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 579405009946 RNA binding surface [nucleotide binding]; other site 579405009947 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 579405009948 active site 579405009949 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 579405009950 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 579405009951 30S subunit binding site; other site 579405009952 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 579405009953 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 579405009954 Prephenate dehydratase; Region: PDT; pfam00800 579405009955 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 579405009956 putative L-Phe binding site [chemical binding]; other site 579405009957 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 579405009958 Chorismate mutase type II; Region: CM_2; cl00693 579405009959 prephenate dehydrogenase; Validated; Region: PRK08507 579405009960 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 579405009961 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 579405009962 lipoprotein; Provisional; Region: PRK11443 579405009963 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 579405009964 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 579405009965 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 579405009966 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 579405009967 RimM N-terminal domain; Region: RimM; pfam01782 579405009968 PRC-barrel domain; Region: PRC; pfam05239 579405009969 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 579405009970 signal recognition particle protein; Provisional; Region: PRK10867 579405009971 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 579405009972 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 579405009973 P loop; other site 579405009974 GTP binding site [chemical binding]; other site 579405009975 Signal peptide binding domain; Region: SRP_SPB; pfam02978 579405009976 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 579405009977 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 579405009978 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 579405009979 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 579405009980 ammonium transporter; Provisional; Region: PRK10666 579405009981 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 579405009982 Nitrogen regulatory protein P-II; Region: P-II; smart00938 579405009983 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 579405009984 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 579405009985 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405009986 Walker A/P-loop; other site 579405009987 ATP binding site [chemical binding]; other site 579405009988 Q-loop/lid; other site 579405009989 ABC transporter signature motif; other site 579405009990 Walker B; other site 579405009991 D-loop; other site 579405009992 H-loop/switch region; other site 579405009993 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 579405009994 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 579405009995 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405009996 Walker A/P-loop; other site 579405009997 ATP binding site [chemical binding]; other site 579405009998 Q-loop/lid; other site 579405009999 ABC transporter signature motif; other site 579405010000 Walker B; other site 579405010001 D-loop; other site 579405010002 H-loop/switch region; other site 579405010003 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 579405010004 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 579405010005 putative DNA binding site [nucleotide binding]; other site 579405010006 putative Zn2+ binding site [ion binding]; other site 579405010007 AsnC family; Region: AsnC_trans_reg; pfam01037 579405010008 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 579405010009 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; cl00342 579405010010 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 579405010011 catalytic residue [active] 579405010012 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 579405010013 Ligand Binding Site [chemical binding]; other site 579405010014 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 579405010015 periplasmic folding chaperone; Provisional; Region: PRK10788 579405010016 SurA N-terminal domain; Region: SurA_N_3; cl07813 579405010017 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 579405010018 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 579405010019 IHF dimer interface [polypeptide binding]; other site 579405010020 IHF - DNA interface [nucleotide binding]; other site 579405010021 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 579405010022 Found in ATP-dependent protease La (LON); Region: LON; smart00464 579405010023 Found in ATP-dependent protease La (LON); Region: LON; smart00464 579405010024 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 579405010025 Walker A motif; other site 579405010026 ATP binding site [chemical binding]; other site 579405010027 Walker B motif; other site 579405010028 arginine finger; other site 579405010029 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 579405010030 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 579405010031 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 579405010032 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 579405010033 Walker A motif; other site 579405010034 ATP binding site [chemical binding]; other site 579405010035 Walker B motif; other site 579405010036 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 579405010037 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 579405010038 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 579405010039 oligomer interface [polypeptide binding]; other site 579405010040 active site residues [active] 579405010041 trigger factor; Provisional; Region: tig; PRK01490 579405010042 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 579405010043 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 579405010044 BolA-like protein; Region: BolA; cl00386 579405010045 hypothetical protein; Provisional; Region: PRK11627 579405010046 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 579405010047 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 579405010048 muropeptide transporter; Reviewed; Region: ampG; PRK11902 579405010049 putative substrate translocation pore; other site 579405010050 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 579405010051 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 579405010052 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 579405010053 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 579405010054 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 579405010055 D-pathway; other site 579405010056 Putative ubiquinol binding site [chemical binding]; other site 579405010057 Low-spin heme (heme b) binding site [chemical binding]; other site 579405010058 Putative water exit pathway; other site 579405010059 Binuclear center (heme o3/CuB) [ion binding]; other site 579405010060 K-pathway; other site 579405010061 Putative proton exit pathway; other site 579405010062 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 579405010063 Subunit I/III interface [polypeptide binding]; other site 579405010064 Subunit III/IV interface [polypeptide binding]; other site 579405010065 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 579405010066 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 579405010067 UbiA prenyltransferase family; Region: UbiA; pfam01040 579405010068 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 579405010069 Major Facilitator Superfamily; Region: MFS_1; pfam07690 579405010070 putative substrate translocation pore; other site 579405010071 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 579405010072 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 579405010073 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 579405010074 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 579405010075 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 579405010076 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 579405010077 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 579405010078 conserved cys residue [active] 579405010079 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 579405010080 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 579405010081 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 579405010082 Ligand Binding Site [chemical binding]; other site 579405010083 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 579405010084 active site residue [active] 579405010085 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 579405010086 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 579405010087 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 579405010088 substrate binding pocket [chemical binding]; other site 579405010089 chain length determination region; other site 579405010090 substrate-Mg2+ binding site; other site 579405010091 catalytic residues [active] 579405010092 aspartate-rich region 1; other site 579405010093 active site lid residues [active] 579405010094 aspartate-rich region 2; other site 579405010095 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 579405010096 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 579405010097 TPP-binding site; other site 579405010098 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 579405010099 PYR/PP interface [polypeptide binding]; other site 579405010100 dimer interface [polypeptide binding]; other site 579405010101 TPP binding site [chemical binding]; other site 579405010102 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 579405010103 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 579405010104 tetramer interfaces [polypeptide binding]; other site 579405010105 binuclear metal-binding site [ion binding]; other site 579405010106 thiamine monophosphate kinase; Provisional; Region: PRK05731 579405010107 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 579405010108 ATP binding site [chemical binding]; other site 579405010109 dimerization interface [polypeptide binding]; other site 579405010110 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 579405010111 putative RNA binding site [nucleotide binding]; other site 579405010112 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 579405010113 homopentamer interface [polypeptide binding]; other site 579405010114 active site 579405010115 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 579405010116 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 579405010117 catalytic motif [active] 579405010118 Zn binding site [ion binding]; other site 579405010119 RibD C-terminal domain; Region: RibD_C; cl17279 579405010120 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 579405010121 ATP cone domain; Region: ATP-cone; pfam03477 579405010122 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 579405010123 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 579405010124 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 579405010125 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 579405010126 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 579405010127 Soluble P-type ATPase [General function prediction only]; Region: COG4087 579405010128 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 579405010129 hypothetical protein; Provisional; Region: PRK11530 579405010130 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 579405010131 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 579405010132 Protein export membrane protein; Region: SecD_SecF; pfam02355 579405010133 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 579405010134 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 579405010135 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 579405010136 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 579405010137 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 579405010138 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 579405010139 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 579405010140 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 579405010141 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 579405010142 Protein of unknown function, DUF479; Region: DUF479; cl01203 579405010143 peroxidase; Provisional; Region: PRK15000 579405010144 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 579405010145 dimer interface [polypeptide binding]; other site 579405010146 decamer (pentamer of dimers) interface [polypeptide binding]; other site 579405010147 catalytic triad [active] 579405010148 peroxidatic and resolving cysteines [active] 579405010149 putative proline-specific permease; Provisional; Region: proY; PRK10580 579405010150 Spore germination protein; Region: Spore_permease; cl17796 579405010151 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 579405010152 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 579405010153 substrate binding site [chemical binding]; other site 579405010154 THF binding site; other site 579405010155 zinc-binding site [ion binding]; other site 579405010156 PBP superfamily domain; Region: PBP_like_2; cl17296 579405010157 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 579405010158 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 579405010159 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 579405010160 putative active site [active] 579405010161 heme pocket [chemical binding]; other site 579405010162 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 579405010163 dimer interface [polypeptide binding]; other site 579405010164 phosphorylation site [posttranslational modification] 579405010165 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 579405010166 ATP binding site [chemical binding]; other site 579405010167 Mg2+ binding site [ion binding]; other site 579405010168 G-X-G motif; other site 579405010169 transcriptional regulator PhoB; Provisional; Region: PRK10161 579405010170 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 579405010171 active site 579405010172 phosphorylation site [posttranslational modification] 579405010173 intermolecular recognition site; other site 579405010174 dimerization interface [polypeptide binding]; other site 579405010175 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 579405010176 DNA binding site [nucleotide binding] 579405010177 exonuclease subunit SbcD; Provisional; Region: PRK10966 579405010178 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 579405010179 active site 579405010180 metal binding site [ion binding]; metal-binding site 579405010181 DNA binding site [nucleotide binding] 579405010182 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 579405010183 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405010184 AAA domain; Region: AAA_23; pfam13476 579405010185 Walker A/P-loop; other site 579405010186 ATP binding site [chemical binding]; other site 579405010187 Q-loop/lid; other site 579405010188 exonuclease subunit SbcC; Provisional; Region: PRK10246 579405010189 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405010190 ABC transporter signature motif; other site 579405010191 Walker B; other site 579405010192 D-loop; other site 579405010193 H-loop/switch region; other site 579405010194 fructokinase; Reviewed; Region: PRK09557 579405010195 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 579405010196 nucleotide binding site [chemical binding]; other site 579405010197 recombination associated protein; Reviewed; Region: rdgC; PRK00321 579405010198 Cache domain; Region: Cache_1; pfam02743 579405010199 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 579405010200 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 579405010201 dimerization interface [polypeptide binding]; other site 579405010202 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405010203 dimer interface [polypeptide binding]; other site 579405010204 putative CheW interface [polypeptide binding]; other site 579405010205 hypothetical protein; Provisional; Region: PRK10579 579405010206 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 579405010207 Shikimate kinase; Region: SKI; pfam01202 579405010208 ADP binding site [chemical binding]; other site 579405010209 magnesium binding site [ion binding]; other site 579405010210 putative shikimate binding site; other site 579405010211 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 579405010212 active site 579405010213 homodimer interface [polypeptide binding]; other site 579405010214 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 579405010215 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405010216 Walker A/P-loop; other site 579405010217 ATP binding site [chemical binding]; other site 579405010218 Q-loop/lid; other site 579405010219 ABC transporter signature motif; other site 579405010220 Walker B; other site 579405010221 D-loop; other site 579405010222 H-loop/switch region; other site 579405010223 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 579405010224 substrate binding site [chemical binding]; other site 579405010225 THF binding site; other site 579405010226 zinc-binding site [ion binding]; other site 579405010227 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 579405010228 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 579405010229 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405010230 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405010231 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 579405010232 dimerization interface [polypeptide binding]; other site 579405010233 hypothetical protein; Provisional; Region: PRK07079 579405010234 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 579405010235 metal binding site [ion binding]; metal-binding site 579405010236 putative dimer interface [polypeptide binding]; other site 579405010237 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 579405010238 metabolite-proton symporter; Region: 2A0106; TIGR00883 579405010239 putative substrate translocation pore; other site 579405010240 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 579405010241 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405010242 Coenzyme A binding pocket [chemical binding]; other site 579405010243 FOG: CBS domain [General function prediction only]; Region: COG0517 579405010244 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 579405010245 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 579405010246 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 579405010247 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 579405010248 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 579405010249 metal binding site [ion binding]; metal-binding site 579405010250 active site 579405010251 I-site; other site 579405010252 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 579405010253 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 579405010254 PhnA protein; Region: PhnA; pfam03831 579405010255 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 579405010256 H+ Antiporter protein; Region: 2A0121; TIGR00900 579405010257 putative substrate translocation pore; other site 579405010258 HNH endonuclease; Region: HNH_5; pfam14279 579405010259 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 579405010260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 579405010261 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 579405010262 active site 579405010263 catalytic residues [active] 579405010264 DNA binding site [nucleotide binding] 579405010265 Int/Topo IB signature motif; other site 579405010266 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 579405010267 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 579405010268 active site 579405010269 catalytic residues [active] 579405010270 DNA binding site [nucleotide binding] 579405010271 Int/Topo IB signature motif; other site 579405010272 Part of AAA domain; Region: AAA_19; pfam13245 579405010273 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 579405010274 Family description; Region: UvrD_C_2; pfam13538 579405010275 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 579405010276 AAA domain; Region: AAA_21; pfam13304 579405010277 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405010278 ABC transporter signature motif; other site 579405010279 Walker B; other site 579405010280 D-loop; other site 579405010281 H-loop/switch region; other site 579405010282 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 579405010283 putative active site [active] 579405010284 putative metal-binding site [ion binding]; other site 579405010285 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 579405010286 active site 579405010287 catalytic residues [active] 579405010288 DNA binding site [nucleotide binding] 579405010289 Int/Topo IB signature motif; other site 579405010290 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 579405010291 MutS domain I; Region: MutS_I; pfam01624 579405010292 MutS domain II; Region: MutS_II; pfam05188 579405010293 MutS domain III; Region: MutS_III; pfam05192 579405010294 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 579405010295 Walker A/P-loop; other site 579405010296 ATP binding site [chemical binding]; other site 579405010297 Q-loop/lid; other site 579405010298 ABC transporter signature motif; other site 579405010299 Walker B; other site 579405010300 D-loop; other site 579405010301 H-loop/switch region; other site 579405010302 NlpE N-terminal domain; Region: NlpE; pfam04170 579405010303 YaeQ protein; Region: YaeQ; pfam07152 579405010304 hypothetical protein; Provisional; Region: PRK04964 579405010305 Rho-binding antiterminator; Provisional; Region: PRK11625 579405010306 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 579405010307 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 579405010308 Ligand Binding Site [chemical binding]; other site 579405010309 TilS substrate binding domain; Region: TilS; pfam09179 579405010310 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 579405010311 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 579405010312 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 579405010313 putative metal binding site [ion binding]; other site 579405010314 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 579405010315 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 579405010316 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 579405010317 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 579405010318 putative active site [active] 579405010319 putative PHP Thumb interface [polypeptide binding]; other site 579405010320 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 579405010321 generic binding surface II; other site 579405010322 generic binding surface I; other site 579405010323 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 579405010324 RNA/DNA hybrid binding site [nucleotide binding]; other site 579405010325 active site 579405010326 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 579405010327 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 579405010328 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 579405010329 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 579405010330 active site 579405010331 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 579405010332 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 579405010333 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 579405010334 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 579405010335 trimer interface [polypeptide binding]; other site 579405010336 active site 579405010337 UDP-GlcNAc binding site [chemical binding]; other site 579405010338 lipid binding site [chemical binding]; lipid-binding site 579405010339 periplasmic chaperone; Provisional; Region: PRK10780 579405010340 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 579405010341 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 579405010342 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 579405010343 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 579405010344 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 579405010345 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 579405010346 Surface antigen; Region: Bac_surface_Ag; pfam01103 579405010347 zinc metallopeptidase RseP; Provisional; Region: PRK10779 579405010348 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 579405010349 active site 579405010350 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 579405010351 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 579405010352 protein binding site [polypeptide binding]; other site 579405010353 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 579405010354 putative substrate binding region [chemical binding]; other site 579405010355 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 579405010356 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 579405010357 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 579405010358 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 579405010359 catalytic residue [active] 579405010360 putative FPP diphosphate binding site; other site 579405010361 putative FPP binding hydrophobic cleft; other site 579405010362 dimer interface [polypeptide binding]; other site 579405010363 putative IPP diphosphate binding site; other site 579405010364 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 579405010365 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 579405010366 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 579405010367 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 579405010368 ribosome recycling factor; Reviewed; Region: frr; PRK00083 579405010369 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 579405010370 hinge region; other site 579405010371 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 579405010372 putative nucleotide binding site [chemical binding]; other site 579405010373 uridine monophosphate binding site [chemical binding]; other site 579405010374 homohexameric interface [polypeptide binding]; other site 579405010375 elongation factor Ts; Provisional; Region: tsf; PRK09377 579405010376 UBA/TS-N domain; Region: UBA; pfam00627 579405010377 Elongation factor TS; Region: EF_TS; pfam00889 579405010378 Elongation factor TS; Region: EF_TS; pfam00889 579405010379 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 579405010380 rRNA interaction site [nucleotide binding]; other site 579405010381 S8 interaction site; other site 579405010382 putative laminin-1 binding site; other site 579405010383 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 579405010384 active site 579405010385 PII uridylyl-transferase; Provisional; Region: PRK05007 579405010386 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 579405010387 metal binding triad; other site 579405010388 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 579405010389 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 579405010390 Zn2+ binding site [ion binding]; other site 579405010391 Mg2+ binding site [ion binding]; other site 579405010392 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 579405010393 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 579405010394 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 579405010395 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 579405010396 trimer interface [polypeptide binding]; other site 579405010397 active site 579405010398 substrate binding site [chemical binding]; other site 579405010399 CoA binding site [chemical binding]; other site 579405010400 hypothetical protein; Provisional; Region: PRK13677 579405010401 flavodoxin; Provisional; Region: PRK08105 579405010402 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 579405010403 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 579405010404 probable active site [active] 579405010405 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 579405010406 SecY interacting protein Syd; Provisional; Region: PRK04968 579405010407 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 579405010408 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 579405010409 flap endonuclease-like protein; Provisional; Region: PRK09482 579405010410 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 579405010411 active site 579405010412 metal binding site 1 [ion binding]; metal-binding site 579405010413 putative 5' ssDNA interaction site; other site 579405010414 metal binding site 3; metal-binding site 579405010415 metal binding site 2 [ion binding]; metal-binding site 579405010416 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 579405010417 putative DNA binding site [nucleotide binding]; other site 579405010418 putative metal binding site [ion binding]; other site 579405010419 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 579405010420 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 579405010421 hypothetical protein; Provisional; Region: PRK10873 579405010422 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 579405010423 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405010424 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 579405010425 dimerization interface [polypeptide binding]; other site 579405010426 substrate binding pocket [chemical binding]; other site 579405010427 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 579405010428 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 579405010429 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 579405010430 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 579405010431 catalytic residue [active] 579405010432 Fe-S metabolism associated domain; Region: SufE; cl00951 579405010433 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 579405010434 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 579405010435 putative ATP binding site [chemical binding]; other site 579405010436 putative substrate interface [chemical binding]; other site 579405010437 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 579405010438 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405010439 Coenzyme A binding pocket [chemical binding]; other site 579405010440 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 579405010441 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 579405010442 dimerization interface [polypeptide binding]; other site 579405010443 NAD binding site [chemical binding]; other site 579405010444 ligand binding site [chemical binding]; other site 579405010445 catalytic site [active] 579405010446 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 579405010447 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405010448 Coenzyme A binding pocket [chemical binding]; other site 579405010449 putative acetyltransferase YhhY; Provisional; Region: PRK10140 579405010450 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405010451 Coenzyme A binding pocket [chemical binding]; other site 579405010452 murein transglycosylase A; Provisional; Region: mltA; PRK11162 579405010453 MltA specific insert domain; Region: MltA; smart00925 579405010454 3D domain; Region: 3D; pfam06725 579405010455 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 579405010456 AMIN domain; Region: AMIN; pfam11741 579405010457 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 579405010458 active site 579405010459 metal binding site [ion binding]; metal-binding site 579405010460 N-acetylglutamate synthase; Validated; Region: PRK05279 579405010461 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 579405010462 putative feedback inhibition sensing region; other site 579405010463 putative nucleotide binding site [chemical binding]; other site 579405010464 putative substrate binding site [chemical binding]; other site 579405010465 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405010466 Coenzyme A binding pocket [chemical binding]; other site 579405010467 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 579405010468 AAA domain; Region: AAA_30; pfam13604 579405010469 Family description; Region: UvrD_C_2; pfam13538 579405010470 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 579405010471 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 579405010472 protease3; Provisional; Region: PRK15101 579405010473 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 579405010474 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 579405010475 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 579405010476 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 579405010477 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 579405010478 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 579405010479 Protein of unknown function (DUF2509); Region: DUF2509; cl11672 579405010480 hypothetical protein; Provisional; Region: PRK10557 579405010481 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 579405010482 hypothetical protein; Provisional; Region: PRK10506 579405010483 thymidylate synthase; Reviewed; Region: thyA; PRK01827 579405010484 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 579405010485 dimerization interface [polypeptide binding]; other site 579405010486 active site 579405010487 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 579405010488 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 579405010489 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 579405010490 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 579405010491 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 579405010492 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 579405010493 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 579405010494 putative active site [active] 579405010495 Ap4A binding site [chemical binding]; other site 579405010496 nudix motif; other site 579405010497 putative metal binding site [ion binding]; other site 579405010498 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 579405010499 putative DNA-binding cleft [nucleotide binding]; other site 579405010500 putative DNA clevage site; other site 579405010501 molecular lever; other site 579405010502 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 579405010503 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 579405010504 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 579405010505 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 579405010506 active site 579405010507 catalytic tetrad [active] 579405010508 hypothetical protein; Provisional; Region: PRK10626 579405010509 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 579405010510 hypothetical protein; Provisional; Region: PRK11702 579405010511 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 579405010512 adenine DNA glycosylase; Provisional; Region: PRK10880 579405010513 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 579405010514 minor groove reading motif; other site 579405010515 helix-hairpin-helix signature motif; other site 579405010516 substrate binding pocket [chemical binding]; other site 579405010517 active site 579405010518 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 579405010519 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 579405010520 DNA binding and oxoG recognition site [nucleotide binding] 579405010521 oxidative damage protection protein; Provisional; Region: PRK05408 579405010522 murein transglycosylase C; Provisional; Region: mltC; PRK11671 579405010523 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 579405010524 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 579405010525 N-acetyl-D-glucosamine binding site [chemical binding]; other site 579405010526 catalytic residue [active] 579405010527 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 579405010528 hypothetical protein; Provisional; Region: PRK02399 579405010529 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 579405010530 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 579405010531 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 579405010532 L-asparagine permease; Provisional; Region: PRK15049 579405010533 ornithine decarboxylase; Provisional; Region: PRK13578 579405010534 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 579405010535 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 579405010536 homodimer interface [polypeptide binding]; other site 579405010537 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405010538 catalytic residue [active] 579405010539 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 579405010540 integrase; Provisional; Region: PRK09692 579405010541 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 579405010542 active site 579405010543 Int/Topo IB signature motif; other site 579405010544 Domain of unknown function (DUF3950); Region: DUF3950; pfam13132 579405010545 plasmid maintenance protein CcdA; Provisional; Region: PRK13710 579405010546 plasmid maintenance protein CcdB; Provisional; Region: PRK13708 579405010547 T5orf172 domain; Region: T5orf172; pfam10544 579405010548 DEAD-like helicases superfamily; Region: DEXDc; smart00487 579405010549 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 579405010550 ATP binding site [chemical binding]; other site 579405010551 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 579405010552 putative Mg++ binding site [ion binding]; other site 579405010553 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 579405010554 Methyltransferase domain; Region: Methyltransf_26; pfam13659 579405010555 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 579405010556 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 579405010557 catalytic residues [active] 579405010558 catalytic nucleophile [active] 579405010559 Presynaptic Site I dimer interface [polypeptide binding]; other site 579405010560 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 579405010561 Synaptic Flat tetramer interface [polypeptide binding]; other site 579405010562 Synaptic Site I dimer interface [polypeptide binding]; other site 579405010563 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 579405010564 DNA-binding interface [nucleotide binding]; DNA binding site 579405010565 Restriction endonuclease [Defense mechanisms]; Region: COG3587 579405010566 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 579405010567 ATP binding site [chemical binding]; other site 579405010568 putative Mg++ binding site [ion binding]; other site 579405010569 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 579405010570 DNA methylase; Region: N6_N4_Mtase; pfam01555 579405010571 DNA methylase; Region: N6_N4_Mtase; cl17433 579405010572 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 579405010573 active site 579405010574 DNA binding site [nucleotide binding] 579405010575 Int/Topo IB signature motif; other site 579405010576 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 579405010577 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 579405010578 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 579405010579 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 579405010580 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 579405010581 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 579405010582 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 579405010583 acyl-activating enzyme (AAE) consensus motif; other site 579405010584 AMP binding site [chemical binding]; other site 579405010585 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405010586 MbtH-like protein; Region: MbtH; cl01279 579405010587 MbtH-like protein; Region: MbtH; cl01279 579405010588 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 579405010589 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 579405010590 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 579405010591 active site 579405010592 ABC-type siderophore export system, fused ATPase and permease components [Secondary metabolites biosynthesis, transport, and catabolism / Inorganic ion transport and metabolism]; Region: PvdE; COG4615 579405010593 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 579405010594 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 579405010595 Walker A/P-loop; other site 579405010596 ATP binding site [chemical binding]; other site 579405010597 Q-loop/lid; other site 579405010598 ABC transporter signature motif; other site 579405010599 Walker B; other site 579405010600 D-loop; other site 579405010601 H-loop/switch region; other site 579405010602 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 579405010603 Beta-lactamase; Region: Beta-lactamase; pfam00144 579405010604 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 579405010605 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 579405010606 Predicted membrane protein (DUF2070); Region: DUF2070; pfam09843 579405010607 Condensation domain; Region: Condensation; pfam00668 579405010608 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 579405010609 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 579405010610 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 579405010611 acyl-activating enzyme (AAE) consensus motif; other site 579405010612 AMP binding site [chemical binding]; other site 579405010613 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405010614 Condensation domain; Region: Condensation; pfam00668 579405010615 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 579405010616 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 579405010617 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 579405010618 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 579405010619 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405010620 homodimer interface [polypeptide binding]; other site 579405010621 catalytic residue [active] 579405010622 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 579405010623 active site 579405010624 metal binding site [ion binding]; metal-binding site 579405010625 Condensation domain; Region: Condensation; pfam00668 579405010626 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 579405010627 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 579405010628 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 579405010629 acyl-activating enzyme (AAE) consensus motif; other site 579405010630 AMP binding site [chemical binding]; other site 579405010631 Methyltransferase domain; Region: Methyltransf_31; pfam13847 579405010632 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 579405010633 S-adenosylmethionine binding site [chemical binding]; other site 579405010634 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 579405010635 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405010636 Condensation domain; Region: Condensation; pfam00668 579405010637 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 579405010638 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 579405010639 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 579405010640 acyl-activating enzyme (AAE) consensus motif; other site 579405010641 AMP binding site [chemical binding]; other site 579405010642 natural product biosynthesis luciferase-like monooxygenase domain; Region: seco_metab_LLM; TIGR04020 579405010643 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 579405010644 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 579405010645 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405010646 Condensation domain; Region: Condensation; pfam00668 579405010647 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 579405010648 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 579405010649 Condensation domain; Region: Condensation; pfam00668 579405010650 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 579405010651 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 579405010652 acyl-activating enzyme (AAE) consensus motif; other site 579405010653 AMP binding site [chemical binding]; other site 579405010654 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405010655 natural product biosynthesis luciferase-like monooxygenase domain; Region: seco_metab_LLM; TIGR04020 579405010656 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 579405010657 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 579405010658 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 579405010659 acyl-activating enzyme (AAE) consensus motif; other site 579405010660 AMP binding site [chemical binding]; other site 579405010661 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405010662 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 579405010663 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 579405010664 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 579405010665 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 579405010666 active site 579405010667 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 579405010668 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 579405010669 putative NADP binding site [chemical binding]; other site 579405010670 active site 579405010671 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405010672 Condensation domain; Region: Condensation; pfam00668 579405010673 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 579405010674 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 579405010675 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 579405010676 acyl-activating enzyme (AAE) consensus motif; other site 579405010677 AMP binding site [chemical binding]; other site 579405010678 Methyltransferase domain; Region: Methyltransf_23; pfam13489 579405010679 Methyltransferase domain; Region: Methyltransf_11; pfam08241 579405010680 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 579405010681 CoA binding site [chemical binding]; other site 579405010682 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405010683 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405010684 Condensation domain; Region: Condensation; pfam00668 579405010685 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 579405010686 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 579405010687 Condensation domain; Region: Condensation; pfam00668 579405010688 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 579405010689 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 579405010690 acyl-activating enzyme (AAE) consensus motif; other site 579405010691 AMP binding site [chemical binding]; other site 579405010692 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 579405010693 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 579405010694 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405010695 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 579405010696 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 579405010697 acyl-activating enzyme (AAE) consensus motif; other site 579405010698 active site 579405010699 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405010700 Predicted ATPase [General function prediction only]; Region: COG4637 579405010701 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405010702 Walker A/P-loop; other site 579405010703 ATP binding site [chemical binding]; other site 579405010704 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 579405010705 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 579405010706 acyl-activating enzyme (AAE) consensus motif; other site 579405010707 active site 579405010708 AMP binding site [chemical binding]; other site 579405010709 substrate binding site [chemical binding]; other site 579405010710 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; cl00220 579405010711 Isochorismatase family; Region: Isochorismatase; pfam00857 579405010712 catalytic triad [active] 579405010713 conserved cis-peptide bond; other site 579405010714 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 579405010715 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 579405010716 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 579405010717 putative NAD(P) binding site [chemical binding]; other site 579405010718 active site 579405010719 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 579405010720 Transposase, Mutator family; Region: Transposase_mut; pfam00872 579405010721 MULE transposase domain; Region: MULE; pfam10551 579405010722 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 579405010723 DNA-binding interface [nucleotide binding]; DNA binding site 579405010724 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 579405010725 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 579405010726 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 579405010727 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 579405010728 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 579405010729 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 579405010730 acyl-activating enzyme (AAE) consensus motif; other site 579405010731 AMP binding site [chemical binding]; other site 579405010732 active site 579405010733 CoA binding site [chemical binding]; other site 579405010734 Condensation domain; Region: Condensation; pfam00668 579405010735 Nonribosomal peptide synthase; Region: NRPS; pfam08415 579405010736 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 579405010737 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 579405010738 acyl-activating enzyme (AAE) consensus motif; other site 579405010739 AMP binding site [chemical binding]; other site 579405010740 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405010741 Cupin domain; Region: Cupin_2; pfam07883 579405010742 Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: MetG; COG0143 579405010743 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 579405010744 active site 579405010745 nucleotide binding site [chemical binding]; other site 579405010746 HIGH motif; other site 579405010747 KMSKS motif; other site 579405010748 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 579405010749 FAD dependent oxidoreductase; Region: DAO; pfam01266 579405010750 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 579405010751 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 579405010752 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 579405010753 Major Facilitator Superfamily; Region: MFS_1; pfam07690 579405010754 putative substrate translocation pore; other site 579405010755 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 579405010756 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 579405010757 Cytochrome P450; Region: p450; cl12078 579405010758 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 579405010759 active site 579405010760 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 579405010761 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 579405010762 active site 579405010763 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 579405010764 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 579405010765 tetramer interface [polypeptide binding]; other site 579405010766 active site 579405010767 Mg2+/Mn2+ binding site [ion binding]; other site 579405010768 Thioesterase domain; Region: Thioesterase; pfam00975 579405010769 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 579405010770 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 579405010771 active site 579405010772 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 579405010773 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405010774 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405010775 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 579405010776 putative dimerization interface [polypeptide binding]; other site 579405010777 plasmid maintenance protein CcdA; Provisional; Region: PRK13710 579405010778 plasmid maintenance protein CcdB; Provisional; Region: PRK13708 579405010779 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 579405010780 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 579405010781 active site 579405010782 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 579405010783 dimer interface [polypeptide binding]; other site 579405010784 substrate binding site [chemical binding]; other site 579405010785 catalytic residue [active] 579405010786 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 579405010787 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 579405010788 Walker A/P-loop; other site 579405010789 ATP binding site [chemical binding]; other site 579405010790 Q-loop/lid; other site 579405010791 ABC transporter signature motif; other site 579405010792 Walker B; other site 579405010793 D-loop; other site 579405010794 H-loop/switch region; other site 579405010795 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 579405010796 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 579405010797 dimer interface [polypeptide binding]; other site 579405010798 conserved gate region; other site 579405010799 putative PBP binding loops; other site 579405010800 ABC-ATPase subunit interface; other site 579405010801 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 579405010802 dimer interface [polypeptide binding]; other site 579405010803 conserved gate region; other site 579405010804 putative PBP binding loops; other site 579405010805 ABC-ATPase subunit interface; other site 579405010806 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 579405010807 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 579405010808 substrate binding pocket [chemical binding]; other site 579405010809 membrane-bound complex binding site; other site 579405010810 hinge residues; other site 579405010811 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 579405010812 homotrimer interaction site [polypeptide binding]; other site 579405010813 putative active site [active] 579405010814 Transcriptional regulator [Transcription]; Region: IclR; COG1414 579405010815 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 579405010816 Bacterial transcriptional regulator; Region: IclR; pfam01614 579405010817 Methyltransferase domain; Region: Methyltransf_23; pfam13489 579405010818 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 579405010819 S-adenosylmethionine binding site [chemical binding]; other site 579405010820 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 579405010821 ArsC family; Region: ArsC; pfam03960 579405010822 catalytic residues [active] 579405010823 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 579405010824 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 579405010825 arsenical-resistance protein; Region: acr3; TIGR00832 579405010826 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 579405010827 dimerization interface [polypeptide binding]; other site 579405010828 putative DNA binding site [nucleotide binding]; other site 579405010829 putative Zn2+ binding site [ion binding]; other site 579405010830 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 579405010831 putative active site [active] 579405010832 heme pocket [chemical binding]; other site 579405010833 Protein of unknown function (DUF1356); Region: DUF1356; pfam07092 579405010834 PAS fold; Region: PAS_4; pfam08448 579405010835 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 579405010836 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 579405010837 metal binding site [ion binding]; metal-binding site 579405010838 active site 579405010839 I-site; other site 579405010840 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 579405010841 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 579405010842 Response regulator receiver domain; Region: Response_reg; pfam00072 579405010843 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 579405010844 active site 579405010845 phosphorylation site [posttranslational modification] 579405010846 intermolecular recognition site; other site 579405010847 dimerization interface [polypeptide binding]; other site 579405010848 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 579405010849 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 579405010850 metal binding site [ion binding]; metal-binding site 579405010851 active site 579405010852 I-site; other site 579405010853 CHASE domain; Region: CHASE; pfam03924 579405010854 PAS domain S-box; Region: sensory_box; TIGR00229 579405010855 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 579405010856 putative active site [active] 579405010857 heme pocket [chemical binding]; other site 579405010858 PAS domain S-box; Region: sensory_box; TIGR00229 579405010859 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 579405010860 putative active site [active] 579405010861 heme pocket [chemical binding]; other site 579405010862 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 579405010863 dimer interface [polypeptide binding]; other site 579405010864 phosphorylation site [posttranslational modification] 579405010865 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 579405010866 ATP binding site [chemical binding]; other site 579405010867 Mg2+ binding site [ion binding]; other site 579405010868 G-X-G motif; other site 579405010869 Response regulator receiver domain; Region: Response_reg; pfam00072 579405010870 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 579405010871 active site 579405010872 phosphorylation site [posttranslational modification] 579405010873 intermolecular recognition site; other site 579405010874 dimerization interface [polypeptide binding]; other site 579405010875 Response regulator receiver domain; Region: Response_reg; pfam00072 579405010876 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 579405010877 active site 579405010878 phosphorylation site [posttranslational modification] 579405010879 intermolecular recognition site; other site 579405010880 dimerization interface [polypeptide binding]; other site 579405010881 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 579405010882 ApbE family; Region: ApbE; pfam02424 579405010883 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 579405010884 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 579405010885 putative active site [active] 579405010886 putative FMN binding site [chemical binding]; other site 579405010887 putative substrate binding site [chemical binding]; other site 579405010888 putative catalytic residue [active] 579405010889 FMN-binding domain; Region: FMN_bind; cl01081 579405010890 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 579405010891 L-aspartate oxidase; Provisional; Region: PRK06175 579405010892 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 579405010893 PAS domain; Region: PAS_9; pfam13426 579405010894 putative active site [active] 579405010895 heme pocket [chemical binding]; other site 579405010896 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 579405010897 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405010898 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405010899 dimer interface [polypeptide binding]; other site 579405010900 putative CheW interface [polypeptide binding]; other site 579405010901 Predicted transcriptional regulators [Transcription]; Region: COG1733 579405010902 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 579405010903 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 579405010904 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 579405010905 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 579405010906 HlyD family secretion protein; Region: HlyD_3; pfam13437 579405010907 HAMP domain; Region: HAMP; pfam00672 579405010908 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 579405010909 dimer interface [polypeptide binding]; other site 579405010910 phosphorylation site [posttranslational modification] 579405010911 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 579405010912 ATP binding site [chemical binding]; other site 579405010913 Mg2+ binding site [ion binding]; other site 579405010914 G-X-G motif; other site 579405010915 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 579405010916 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 579405010917 active site 579405010918 phosphorylation site [posttranslational modification] 579405010919 intermolecular recognition site; other site 579405010920 dimerization interface [polypeptide binding]; other site 579405010921 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 579405010922 DNA binding site [nucleotide binding] 579405010923 MltA-interacting protein MipA; Region: MipA; cl01504 579405010924 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 579405010925 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 579405010926 IucA / IucC family; Region: IucA_IucC; pfam04183 579405010927 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 579405010928 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 579405010929 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 579405010930 IucA / IucC family; Region: IucA_IucC; pfam04183 579405010931 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 579405010932 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 579405010933 dimer interface [polypeptide binding]; other site 579405010934 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 579405010935 active site 579405010936 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 579405010937 catalytic residues [active] 579405010938 substrate binding site [chemical binding]; other site 579405010939 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 579405010940 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 579405010941 intersubunit interface [polypeptide binding]; other site 579405010942 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 579405010943 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 579405010944 N-terminal plug; other site 579405010945 ligand-binding site [chemical binding]; other site 579405010946 Iron permease FTR1 family; Region: FTR1; cl00475 579405010947 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 579405010948 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 579405010949 Imelysin; Region: Peptidase_M75; pfam09375 579405010950 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 579405010951 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 579405010952 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 579405010953 nudix motif; other site 579405010954 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405010955 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 579405010956 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 579405010957 dimerization interface [polypeptide binding]; other site 579405010958 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 579405010959 HTH domain; Region: HTH_11; pfam08279 579405010960 Mga helix-turn-helix domain; Region: Mga; pfam05043 579405010961 PRD domain; Region: PRD; pfam00874 579405010962 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 579405010963 active site 579405010964 P-loop; other site 579405010965 phosphorylation site [posttranslational modification] 579405010966 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 579405010967 active site 579405010968 phosphorylation site [posttranslational modification] 579405010969 conserved hypothetical protein EF_0839/AHA_3917; Region: EF_0839; TIGR03581 579405010970 uncharacterized pyridoxal phosphate-dependent enzyme; Region: selA_rel; TIGR01437 579405010971 dihydroorotase; Provisional; Region: PRK09237 579405010972 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 579405010973 active site 579405010974 conserved hypothetical protein EF_0833/AHA_3914; Region: EF_0833; TIGR03579 579405010975 conserved hypothetical protein EF_0832/AHA_3913; Region: EF_0832; TIGR03580 579405010976 Domain of unknown function (DUF4312); Region: DUF4312; pfam14189 579405010977 Glycine-rich SFCGS; Region: Gly_rich_SFCGS; cl11916 579405010978 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 579405010979 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 579405010980 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 579405010981 molybdopterin cofactor binding site [chemical binding]; other site 579405010982 substrate binding site [chemical binding]; other site 579405010983 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 579405010984 molybdopterin cofactor binding site; other site 579405010985 hypothetical protein; Provisional; Region: PRK05208 579405010986 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 579405010987 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 579405010988 non-specific DNA binding site [nucleotide binding]; other site 579405010989 salt bridge; other site 579405010990 sequence-specific DNA binding site [nucleotide binding]; other site 579405010991 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 579405010992 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 579405010993 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 579405010994 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 579405010995 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405010996 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405010997 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 579405010998 putative effector binding pocket; other site 579405010999 putative dimerization interface [polypeptide binding]; other site 579405011000 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 579405011001 tartrate dehydrogenase; Region: TTC; TIGR02089 579405011002 drug efflux system protein MdtG; Provisional; Region: PRK09874 579405011003 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 579405011004 putative substrate translocation pore; other site 579405011005 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 579405011006 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 579405011007 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 579405011008 dimer interface [polypeptide binding]; other site 579405011009 conserved gate region; other site 579405011010 putative PBP binding loops; other site 579405011011 ABC-ATPase subunit interface; other site 579405011012 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 579405011013 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 579405011014 dimer interface [polypeptide binding]; other site 579405011015 ABC-ATPase subunit interface; other site 579405011016 putative PBP binding loops; other site 579405011017 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 579405011018 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 579405011019 Walker A/P-loop; other site 579405011020 ATP binding site [chemical binding]; other site 579405011021 Q-loop/lid; other site 579405011022 ABC transporter signature motif; other site 579405011023 Walker B; other site 579405011024 D-loop; other site 579405011025 H-loop/switch region; other site 579405011026 TOBE domain; Region: TOBE_2; pfam08402 579405011027 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 579405011028 Transcriptional regulators [Transcription]; Region: PurR; COG1609 579405011029 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 579405011030 DNA binding site [nucleotide binding] 579405011031 domain linker motif; other site 579405011032 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 579405011033 putative dimerization interface [polypeptide binding]; other site 579405011034 putative ligand binding site [chemical binding]; other site 579405011035 YdfZ protein; Region: YdfZ; pfam14001 579405011036 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405011037 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405011038 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 579405011039 dimerization interface [polypeptide binding]; other site 579405011040 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 579405011041 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 579405011042 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 579405011043 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 579405011044 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 579405011045 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 579405011046 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 579405011047 putative transporter; Provisional; Region: PRK10504 579405011048 putative substrate translocation pore; other site 579405011049 FMN-binding domain; Region: FMN_bind; pfam04205 579405011050 hypothetical protein; Validated; Region: PRK07121 579405011051 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 579405011052 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 579405011053 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 579405011054 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 579405011055 minor groove reading motif; other site 579405011056 helix-hairpin-helix signature motif; other site 579405011057 substrate binding pocket [chemical binding]; other site 579405011058 active site 579405011059 fumarate hydratase; Provisional; Region: PRK15389 579405011060 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 579405011061 Fumarase C-terminus; Region: Fumerase_C; pfam05683 579405011062 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 579405011063 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 579405011064 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 579405011065 putative transporter; Provisional; Region: PRK11021 579405011066 cell division protein ZipA; Provisional; Region: PRK03427 579405011067 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 579405011068 FtsZ protein binding site [polypeptide binding]; other site 579405011069 putative sulfate transport protein CysZ; Validated; Region: PRK04949 579405011070 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 579405011071 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 579405011072 dimer interface [polypeptide binding]; other site 579405011073 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405011074 catalytic residue [active] 579405011075 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 579405011076 dimerization domain swap beta strand [polypeptide binding]; other site 579405011077 regulatory protein interface [polypeptide binding]; other site 579405011078 active site 579405011079 regulatory phosphorylation site [posttranslational modification]; other site 579405011080 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 579405011081 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 579405011082 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 579405011083 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 579405011084 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 579405011085 HPr interaction site; other site 579405011086 glycerol kinase (GK) interaction site [polypeptide binding]; other site 579405011087 active site 579405011088 phosphorylation site [posttranslational modification] 579405011089 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 579405011090 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 579405011091 dimerization interface [polypeptide binding]; other site 579405011092 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 579405011093 dimer interface [polypeptide binding]; other site 579405011094 phosphorylation site [posttranslational modification] 579405011095 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 579405011096 ATP binding site [chemical binding]; other site 579405011097 Mg2+ binding site [ion binding]; other site 579405011098 G-X-G motif; other site 579405011099 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 579405011100 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 579405011101 active site 579405011102 phosphorylation site [posttranslational modification] 579405011103 intermolecular recognition site; other site 579405011104 dimerization interface [polypeptide binding]; other site 579405011105 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 579405011106 DNA binding site [nucleotide binding] 579405011107 macrolide transporter subunit MacA; Provisional; Region: PRK11578 579405011108 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 579405011109 HlyD family secretion protein; Region: HlyD_3; pfam13437 579405011110 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 579405011111 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 579405011112 Walker A/P-loop; other site 579405011113 ATP binding site [chemical binding]; other site 579405011114 Q-loop/lid; other site 579405011115 ABC transporter signature motif; other site 579405011116 Walker B; other site 579405011117 D-loop; other site 579405011118 H-loop/switch region; other site 579405011119 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 579405011120 FtsX-like permease family; Region: FtsX; pfam02687 579405011121 cysteine synthase B; Region: cysM; TIGR01138 579405011122 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 579405011123 dimer interface [polypeptide binding]; other site 579405011124 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405011125 catalytic residue [active] 579405011126 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 579405011127 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 579405011128 Na binding site [ion binding]; other site 579405011129 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 579405011130 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 579405011131 DNA binding residues [nucleotide binding] 579405011132 dimerization interface [polypeptide binding]; other site 579405011133 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405011134 Coenzyme A binding pocket [chemical binding]; other site 579405011135 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 579405011136 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 579405011137 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 579405011138 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 579405011139 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 579405011140 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 579405011141 catalytic residue [active] 579405011142 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 579405011143 EamA-like transporter family; Region: EamA; pfam00892 579405011144 putative acetyltransferase; Provisional; Region: PRK03624 579405011145 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405011146 Coenzyme A binding pocket [chemical binding]; other site 579405011147 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 579405011148 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 579405011149 hypothetical protein; Validated; Region: PRK00124 579405011150 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 579405011151 Malic enzyme, N-terminal domain; Region: malic; pfam00390 579405011152 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 579405011153 putative NAD(P) binding site [chemical binding]; other site 579405011154 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 579405011155 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 579405011156 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 579405011157 dimer interface [polypeptide binding]; other site 579405011158 ADP-ribose binding site [chemical binding]; other site 579405011159 active site 579405011160 nudix motif; other site 579405011161 metal binding site [ion binding]; metal-binding site 579405011162 manganese transport protein MntH; Reviewed; Region: PRK00701 579405011163 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 579405011164 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 579405011165 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 579405011166 dimer interface [polypeptide binding]; other site 579405011167 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 579405011168 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 579405011169 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 579405011170 recombination and repair protein; Provisional; Region: PRK10869 579405011171 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 579405011172 Walker A/P-loop; other site 579405011173 ATP binding site [chemical binding]; other site 579405011174 Q-loop/lid; other site 579405011175 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 579405011176 Q-loop/lid; other site 579405011177 ABC transporter signature motif; other site 579405011178 Walker B; other site 579405011179 D-loop; other site 579405011180 H-loop/switch region; other site 579405011181 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 579405011182 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 579405011183 hypothetical protein; Validated; Region: PRK01777 579405011184 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 579405011185 putative coenzyme Q binding site [chemical binding]; other site 579405011186 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 579405011187 SmpB-tmRNA interface; other site 579405011188 integrase; Provisional; Region: PRK09692 579405011189 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 579405011190 active site 579405011191 Int/Topo IB signature motif; other site 579405011192 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 579405011193 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 579405011194 non-specific DNA binding site [nucleotide binding]; other site 579405011195 salt bridge; other site 579405011196 sequence-specific DNA binding site [nucleotide binding]; other site 579405011197 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 579405011198 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 579405011199 non-specific DNA binding site [nucleotide binding]; other site 579405011200 salt bridge; other site 579405011201 sequence-specific DNA binding site [nucleotide binding]; other site 579405011202 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 579405011203 Nucleoside recognition; Region: Gate; pfam07670 579405011204 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 579405011205 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 579405011206 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 579405011207 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 579405011208 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 579405011209 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 579405011210 dimer interface [polypeptide binding]; other site 579405011211 conserved gate region; other site 579405011212 putative PBP binding loops; other site 579405011213 ABC-ATPase subunit interface; other site 579405011214 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 579405011215 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 579405011216 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405011217 Walker A/P-loop; other site 579405011218 ATP binding site [chemical binding]; other site 579405011219 Q-loop/lid; other site 579405011220 ABC transporter signature motif; other site 579405011221 Walker B; other site 579405011222 D-loop; other site 579405011223 H-loop/switch region; other site 579405011224 TOBE domain; Region: TOBE_2; pfam08402 579405011225 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 579405011226 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 579405011227 active site 579405011228 octamer interface [polypeptide binding]; other site 579405011229 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 579405011230 D-galactonate transporter; Region: 2A0114; TIGR00893 579405011231 putative substrate translocation pore; other site 579405011232 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405011233 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405011234 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 579405011235 dimerization interface [polypeptide binding]; other site 579405011236 Transglycosylase SLT domain; Region: SLT_2; pfam13406 579405011237 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 579405011238 N-acetyl-D-glucosamine binding site [chemical binding]; other site 579405011239 catalytic residue [active] 579405011240 PAS domain; Region: PAS_9; pfam13426 579405011241 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 579405011242 putative active site [active] 579405011243 heme pocket [chemical binding]; other site 579405011244 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 579405011245 PAS domain; Region: PAS_9; pfam13426 579405011246 putative active site [active] 579405011247 heme pocket [chemical binding]; other site 579405011248 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405011249 dimer interface [polypeptide binding]; other site 579405011250 putative CheW interface [polypeptide binding]; other site 579405011251 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 579405011252 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 579405011253 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 579405011254 putative active site [active] 579405011255 metal binding site [ion binding]; metal-binding site 579405011256 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 579405011257 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 579405011258 inhibitor-cofactor binding pocket; inhibition site 579405011259 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405011260 catalytic residue [active] 579405011261 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 579405011262 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405011263 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 579405011264 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 579405011265 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 579405011266 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 579405011267 DinI-like family; Region: DinI; cl11630 579405011268 lipoprotein; Reviewed; Region: PRK02939 579405011269 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 579405011270 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 579405011271 Coenzyme A binding pocket [chemical binding]; other site 579405011272 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 579405011273 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 579405011274 dimer interface [polypeptide binding]; other site 579405011275 PYR/PP interface [polypeptide binding]; other site 579405011276 TPP binding site [chemical binding]; other site 579405011277 substrate binding site [chemical binding]; other site 579405011278 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 579405011279 Domain of unknown function; Region: EKR; pfam10371 579405011280 4Fe-4S binding domain; Region: Fer4_6; pfam12837 579405011281 4Fe-4S binding domain; Region: Fer4; pfam00037 579405011282 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 579405011283 TPP-binding site [chemical binding]; other site 579405011284 dimer interface [polypeptide binding]; other site 579405011285 L,D-transpeptidase; Provisional; Region: PRK10260 579405011286 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 579405011287 transcriptional regulator SlyA; Provisional; Region: PRK03573 579405011288 MarR family; Region: MarR_2; cl17246 579405011289 HlyD family secretion protein; Region: HlyD; pfam00529 579405011290 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 579405011291 HlyD family secretion protein; Region: HlyD_3; pfam13437 579405011292 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 579405011293 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 579405011294 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 579405011295 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 579405011296 non-specific DNA binding site [nucleotide binding]; other site 579405011297 salt bridge; other site 579405011298 sequence-specific DNA binding site [nucleotide binding]; other site 579405011299 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 579405011300 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 579405011301 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 579405011302 acetyl-CoA synthetase; Provisional; Region: PRK00174 579405011303 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 579405011304 active site 579405011305 CoA binding site [chemical binding]; other site 579405011306 acyl-activating enzyme (AAE) consensus motif; other site 579405011307 AMP binding site [chemical binding]; other site 579405011308 acetate binding site [chemical binding]; other site 579405011309 Predicted membrane protein [Function unknown]; Region: COG3162 579405011310 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 579405011311 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 579405011312 Na binding site [ion binding]; other site 579405011313 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 579405011314 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 579405011315 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 579405011316 molybdenum-pterin binding domain; Region: Mop; TIGR00638 579405011317 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 579405011318 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 579405011319 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 579405011320 dimer interface [polypeptide binding]; other site 579405011321 conserved gate region; other site 579405011322 putative PBP binding loops; other site 579405011323 ABC-ATPase subunit interface; other site 579405011324 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 579405011325 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 579405011326 dimer interface [polypeptide binding]; other site 579405011327 ABC-ATPase subunit interface; other site 579405011328 putative PBP binding loops; other site 579405011329 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 579405011330 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 579405011331 active site 579405011332 metal binding site [ion binding]; metal-binding site 579405011333 hexamer interface [polypeptide binding]; other site 579405011334 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 579405011335 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 579405011336 Walker A/P-loop; other site 579405011337 ATP binding site [chemical binding]; other site 579405011338 Q-loop/lid; other site 579405011339 ABC transporter signature motif; other site 579405011340 Walker B; other site 579405011341 D-loop; other site 579405011342 H-loop/switch region; other site 579405011343 TOBE domain; Region: TOBE_2; pfam08402 579405011344 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 579405011345 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 579405011346 Bacterial sugar transferase; Region: Bac_transf; pfam02397 579405011347 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 579405011348 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 579405011349 putative NAD(P) binding site [chemical binding]; other site 579405011350 active site 579405011351 putative substrate binding site [chemical binding]; other site 579405011352 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 579405011353 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 579405011354 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 579405011355 NAD(P) binding site [chemical binding]; other site 579405011356 homodimer interface [polypeptide binding]; other site 579405011357 substrate binding site [chemical binding]; other site 579405011358 active site 579405011359 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 579405011360 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 579405011361 putative ADP-binding pocket [chemical binding]; other site 579405011362 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 579405011363 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 579405011364 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 579405011365 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 579405011366 NADP-binding site; other site 579405011367 homotetramer interface [polypeptide binding]; other site 579405011368 substrate binding site [chemical binding]; other site 579405011369 homodimer interface [polypeptide binding]; other site 579405011370 active site 579405011371 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 579405011372 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 579405011373 NADP-binding site; other site 579405011374 homotetramer interface [polypeptide binding]; other site 579405011375 substrate binding site [chemical binding]; other site 579405011376 homodimer interface [polypeptide binding]; other site 579405011377 active site 579405011378 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 579405011379 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 579405011380 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 579405011381 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 579405011382 phosphomannomutase CpsG; Provisional; Region: PRK15414 579405011383 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 579405011384 active site 579405011385 substrate binding site [chemical binding]; other site 579405011386 metal binding site [ion binding]; metal-binding site 579405011387 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 579405011388 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 579405011389 Substrate binding site; other site 579405011390 Cupin domain; Region: Cupin_2; cl17218 579405011391 Predicted transcriptional regulators [Transcription]; Region: COG1733 579405011392 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 579405011393 dimerization interface [polypeptide binding]; other site 579405011394 putative DNA binding site [nucleotide binding]; other site 579405011395 putative Zn2+ binding site [ion binding]; other site 579405011396 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 579405011397 substrate binding site [chemical binding]; other site 579405011398 THF binding site; other site 579405011399 zinc-binding site [ion binding]; other site 579405011400 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 579405011401 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 579405011402 NAD binding site [chemical binding]; other site 579405011403 substrate binding site [chemical binding]; other site 579405011404 homodimer interface [polypeptide binding]; other site 579405011405 active site 579405011406 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 579405011407 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 579405011408 substrate binding site; other site 579405011409 tetramer interface; other site 579405011410 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 579405011411 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 579405011412 NADP binding site [chemical binding]; other site 579405011413 active site 579405011414 putative substrate binding site [chemical binding]; other site 579405011415 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 579405011416 LysE type translocator; Region: LysE; pfam01810 579405011417 Predicted membrane protein [Function unknown]; Region: COG3817 579405011418 Protein of unknown function (DUF979); Region: DUF979; pfam06166 579405011419 Protein of unknown function (DUF969); Region: DUF969; pfam06149 579405011420 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 579405011421 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 579405011422 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 579405011423 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 579405011424 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 579405011425 carboxyltransferase (CT) interaction site; other site 579405011426 biotinylation site [posttranslational modification]; other site 579405011427 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 579405011428 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 579405011429 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 579405011430 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 579405011431 putative active site [active] 579405011432 Transcriptional regulators [Transcription]; Region: GntR; COG1802 579405011433 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405011434 DNA-binding site [nucleotide binding]; DNA binding site 579405011435 FCD domain; Region: FCD; pfam07729 579405011436 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 579405011437 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 579405011438 dimer interface [polypeptide binding]; other site 579405011439 putative anticodon binding site; other site 579405011440 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 579405011441 motif 1; other site 579405011442 active site 579405011443 motif 2; other site 579405011444 motif 3; other site 579405011445 peptide chain release factor 2; Validated; Region: prfB; PRK00578 579405011446 This domain is found in peptide chain release factors; Region: PCRF; smart00937 579405011447 RF-1 domain; Region: RF-1; pfam00472 579405011448 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 579405011449 DHH family; Region: DHH; pfam01368 579405011450 DHHA1 domain; Region: DHHA1; pfam02272 579405011451 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 579405011452 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 579405011453 dimerization domain [polypeptide binding]; other site 579405011454 dimer interface [polypeptide binding]; other site 579405011455 catalytic residues [active] 579405011456 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 579405011457 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 579405011458 active site 579405011459 Int/Topo IB signature motif; other site 579405011460 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional; Region: PRK10128 579405011461 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 579405011462 metabolite-proton symporter; Region: 2A0106; TIGR00883 579405011463 putative substrate translocation pore; other site 579405011464 flavodoxin FldB; Provisional; Region: PRK12359 579405011465 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 579405011466 hypothetical protein; Provisional; Region: PRK10878 579405011467 putative global regulator; Reviewed; Region: PRK09559 579405011468 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 579405011469 hemolysin; Provisional; Region: PRK15087 579405011470 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 579405011471 HD domain; Region: HD_3; pfam13023 579405011472 glycine dehydrogenase; Provisional; Region: PRK05367 579405011473 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 579405011474 tetramer interface [polypeptide binding]; other site 579405011475 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405011476 catalytic residue [active] 579405011477 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 579405011478 tetramer interface [polypeptide binding]; other site 579405011479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405011480 catalytic residue [active] 579405011481 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 579405011482 lipoyl attachment site [posttranslational modification]; other site 579405011483 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 579405011484 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 579405011485 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 579405011486 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 579405011487 substrate binding pocket [chemical binding]; other site 579405011488 membrane-bound complex binding site; other site 579405011489 hinge residues; other site 579405011490 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 579405011491 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 579405011492 dimer interface [polypeptide binding]; other site 579405011493 conserved gate region; other site 579405011494 putative PBP binding loops; other site 579405011495 ABC-ATPase subunit interface; other site 579405011496 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 579405011497 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 579405011498 Walker A/P-loop; other site 579405011499 ATP binding site [chemical binding]; other site 579405011500 Q-loop/lid; other site 579405011501 ABC transporter signature motif; other site 579405011502 Walker B; other site 579405011503 D-loop; other site 579405011504 H-loop/switch region; other site 579405011505 Transcriptional regulators [Transcription]; Region: FadR; COG2186 579405011506 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405011507 DNA-binding site [nucleotide binding]; DNA binding site 579405011508 FCD domain; Region: FCD; pfam07729 579405011509 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 579405011510 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 579405011511 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 579405011512 dimer interface [polypeptide binding]; other site 579405011513 active site 579405011514 metal binding site [ion binding]; metal-binding site 579405011515 acetolactate synthase; Reviewed; Region: PRK08617 579405011516 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 579405011517 PYR/PP interface [polypeptide binding]; other site 579405011518 dimer interface [polypeptide binding]; other site 579405011519 TPP binding site [chemical binding]; other site 579405011520 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 579405011521 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 579405011522 TPP-binding site [chemical binding]; other site 579405011523 dimer interface [polypeptide binding]; other site 579405011524 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 579405011525 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405011526 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405011527 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 579405011528 putative dimerization interface [polypeptide binding]; other site 579405011529 putative substrate binding pocket [chemical binding]; other site 579405011530 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 579405011531 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405011532 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405011533 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 579405011534 putative effector binding pocket; other site 579405011535 putative dimerization interface [polypeptide binding]; other site 579405011536 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 579405011537 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 579405011538 active site 579405011539 catalytic tetrad [active] 579405011540 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 579405011541 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 579405011542 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 579405011543 S-adenosylmethionine binding site [chemical binding]; other site 579405011544 DNA polymerase III subunit psi; Validated; Region: PRK06856 579405011545 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 579405011546 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405011547 Coenzyme A binding pocket [chemical binding]; other site 579405011548 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 579405011549 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 579405011550 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 579405011551 DNA binding residues [nucleotide binding] 579405011552 fec operon regulator FecR; Reviewed; Region: PRK09774 579405011553 FecR protein; Region: FecR; pfam04773 579405011554 Secretin and TonB N terminus short domain; Region: STN; smart00965 579405011555 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 579405011556 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 579405011557 N-terminal plug; other site 579405011558 ligand-binding site [chemical binding]; other site 579405011559 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 579405011560 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 579405011561 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 579405011562 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 579405011563 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 579405011564 phosphopentomutase; Provisional; Region: PRK05362 579405011565 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 579405011566 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 579405011567 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 579405011568 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 579405011569 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 579405011570 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 579405011571 intersubunit interface [polypeptide binding]; other site 579405011572 active site 579405011573 catalytic residue [active] 579405011574 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 579405011575 GIY-YIG motif/motif A; other site 579405011576 putative active site [active] 579405011577 putative metal binding site [ion binding]; other site 579405011578 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 579405011579 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405011580 Coenzyme A binding pocket [chemical binding]; other site 579405011581 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 579405011582 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 579405011583 Peptidase family U32; Region: Peptidase_U32; pfam01136 579405011584 putative protease; Provisional; Region: PRK15447 579405011585 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 579405011586 hypothetical protein; Provisional; Region: PRK10508 579405011587 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 579405011588 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 579405011589 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 579405011590 ATP binding site [chemical binding]; other site 579405011591 Mg++ binding site [ion binding]; other site 579405011592 motif III; other site 579405011593 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 579405011594 nucleotide binding region [chemical binding]; other site 579405011595 ATP-binding site [chemical binding]; other site 579405011596 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 579405011597 putative RNA binding site [nucleotide binding]; other site 579405011598 lipoprotein NlpI; Provisional; Region: PRK11189 579405011599 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 579405011600 binding surface 579405011601 TPR motif; other site 579405011602 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 579405011603 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 579405011604 RNase E interface [polypeptide binding]; other site 579405011605 trimer interface [polypeptide binding]; other site 579405011606 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 579405011607 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 579405011608 RNase E interface [polypeptide binding]; other site 579405011609 trimer interface [polypeptide binding]; other site 579405011610 active site 579405011611 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 579405011612 putative nucleic acid binding region [nucleotide binding]; other site 579405011613 G-X-X-G motif; other site 579405011614 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 579405011615 RNA binding site [nucleotide binding]; other site 579405011616 domain interface; other site 579405011617 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 579405011618 16S/18S rRNA binding site [nucleotide binding]; other site 579405011619 S13e-L30e interaction site [polypeptide binding]; other site 579405011620 25S rRNA binding site [nucleotide binding]; other site 579405011621 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 579405011622 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 579405011623 RNA binding site [nucleotide binding]; other site 579405011624 active site 579405011625 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 579405011626 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 579405011627 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 579405011628 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 579405011629 translation initiation factor IF-2; Region: IF-2; TIGR00487 579405011630 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 579405011631 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 579405011632 G1 box; other site 579405011633 putative GEF interaction site [polypeptide binding]; other site 579405011634 GTP/Mg2+ binding site [chemical binding]; other site 579405011635 Switch I region; other site 579405011636 G2 box; other site 579405011637 G3 box; other site 579405011638 Switch II region; other site 579405011639 G4 box; other site 579405011640 G5 box; other site 579405011641 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 579405011642 Translation-initiation factor 2; Region: IF-2; pfam11987 579405011643 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 579405011644 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 579405011645 NusA N-terminal domain; Region: NusA_N; pfam08529 579405011646 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 579405011647 RNA binding site [nucleotide binding]; other site 579405011648 homodimer interface [polypeptide binding]; other site 579405011649 NusA-like KH domain; Region: KH_5; pfam13184 579405011650 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 579405011651 G-X-X-G motif; other site 579405011652 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 579405011653 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 579405011654 ribosome maturation protein RimP; Reviewed; Region: PRK00092 579405011655 hypothetical protein; Provisional; Region: PRK14641 579405011656 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 579405011657 putative oligomer interface [polypeptide binding]; other site 579405011658 putative RNA binding site [nucleotide binding]; other site 579405011659 Preprotein translocase SecG subunit; Region: SecG; pfam03840 579405011660 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 579405011661 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 579405011662 active site 579405011663 substrate binding site [chemical binding]; other site 579405011664 metal binding site [ion binding]; metal-binding site 579405011665 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 579405011666 dihydropteroate synthase; Region: DHPS; TIGR01496 579405011667 substrate binding pocket [chemical binding]; other site 579405011668 dimer interface [polypeptide binding]; other site 579405011669 inhibitor binding site; inhibition site 579405011670 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 579405011671 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 579405011672 Walker A motif; other site 579405011673 ATP binding site [chemical binding]; other site 579405011674 Walker B motif; other site 579405011675 arginine finger; other site 579405011676 Peptidase family M41; Region: Peptidase_M41; pfam01434 579405011677 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 579405011678 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 579405011679 S-adenosylmethionine binding site [chemical binding]; other site 579405011680 RNA-binding protein YhbY; Provisional; Region: PRK10343 579405011681 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 579405011682 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 579405011683 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 579405011684 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 579405011685 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 579405011686 GTPase CgtA; Reviewed; Region: obgE; PRK12298 579405011687 GTP1/OBG; Region: GTP1_OBG; pfam01018 579405011688 Obg GTPase; Region: Obg; cd01898 579405011689 G1 box; other site 579405011690 GTP/Mg2+ binding site [chemical binding]; other site 579405011691 Switch I region; other site 579405011692 G2 box; other site 579405011693 G3 box; other site 579405011694 Switch II region; other site 579405011695 G4 box; other site 579405011696 G5 box; other site 579405011697 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 579405011698 EamA-like transporter family; Region: EamA; pfam00892 579405011699 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 579405011700 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 579405011701 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 579405011702 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 579405011703 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 579405011704 substrate binding pocket [chemical binding]; other site 579405011705 chain length determination region; other site 579405011706 substrate-Mg2+ binding site; other site 579405011707 catalytic residues [active] 579405011708 aspartate-rich region 1; other site 579405011709 active site lid residues [active] 579405011710 aspartate-rich region 2; other site 579405011711 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 579405011712 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 579405011713 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 579405011714 malate dehydrogenase; Provisional; Region: PRK05086 579405011715 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 579405011716 NAD binding site [chemical binding]; other site 579405011717 dimerization interface [polypeptide binding]; other site 579405011718 Substrate binding site [chemical binding]; other site 579405011719 arginine repressor; Provisional; Region: PRK05066 579405011720 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 579405011721 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 579405011722 UGMP family protein; Validated; Region: PRK09604 579405011723 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 579405011724 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 579405011725 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 579405011726 DNA primase; Validated; Region: dnaG; PRK05667 579405011727 CHC2 zinc finger; Region: zf-CHC2; pfam01807 579405011728 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 579405011729 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 579405011730 active site 579405011731 metal binding site [ion binding]; metal-binding site 579405011732 interdomain interaction site; other site 579405011733 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 579405011734 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 579405011735 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 579405011736 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 579405011737 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 579405011738 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 579405011739 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 579405011740 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 579405011741 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 579405011742 DNA binding residues [nucleotide binding] 579405011743 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 579405011744 ApbE family; Region: ApbE; pfam02424 579405011745 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405011746 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 579405011747 Walker A/P-loop; other site 579405011748 ATP binding site [chemical binding]; other site 579405011749 Q-loop/lid; other site 579405011750 ABC transporter signature motif; other site 579405011751 Walker B; other site 579405011752 D-loop; other site 579405011753 H-loop/switch region; other site 579405011754 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405011755 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 579405011756 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405011757 Walker A/P-loop; other site 579405011758 ATP binding site [chemical binding]; other site 579405011759 Q-loop/lid; other site 579405011760 ABC transporter signature motif; other site 579405011761 Walker B; other site 579405011762 D-loop; other site 579405011763 H-loop/switch region; other site 579405011764 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 579405011765 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 579405011766 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 579405011767 dimer interface [polypeptide binding]; other site 579405011768 conserved gate region; other site 579405011769 putative PBP binding loops; other site 579405011770 ABC-ATPase subunit interface; other site 579405011771 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 579405011772 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 579405011773 dimer interface [polypeptide binding]; other site 579405011774 conserved gate region; other site 579405011775 putative PBP binding loops; other site 579405011776 ABC-ATPase subunit interface; other site 579405011777 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_8; cd08495 579405011778 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 579405011779 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 579405011780 dimer interface [polypeptide binding]; other site 579405011781 Pectate lyase; Region: Pec_lyase_C; cl01593 579405011782 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 579405011783 Methyltransferase small domain; Region: MTS; pfam05175 579405011784 S-adenosylmethionine binding site [chemical binding]; other site 579405011785 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 579405011786 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 579405011787 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 579405011788 galactarate dehydratase; Region: galactar-dH20; TIGR03248 579405011789 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 579405011790 altronate oxidoreductase; Provisional; Region: PRK03643 579405011791 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 579405011792 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 579405011793 Glucuronate isomerase; Region: UxaC; pfam02614 579405011794 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 579405011795 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 579405011796 D-galactonate transporter; Region: 2A0114; TIGR00893 579405011797 putative substrate translocation pore; other site 579405011798 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 579405011799 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405011800 DNA-binding site [nucleotide binding]; DNA binding site 579405011801 FCD domain; Region: FCD; pfam07729 579405011802 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 579405011803 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 579405011804 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 579405011805 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 579405011806 Predicted membrane protein [Function unknown]; Region: COG5393 579405011807 YqjK-like protein; Region: YqjK; pfam13997 579405011808 Predicted membrane protein [Function unknown]; Region: COG2259 579405011809 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 579405011810 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 579405011811 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 579405011812 putative dimer interface [polypeptide binding]; other site 579405011813 N-terminal domain interface [polypeptide binding]; other site 579405011814 putative substrate binding pocket (H-site) [chemical binding]; other site 579405011815 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405011816 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 579405011817 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 579405011818 dimerization interface [polypeptide binding]; other site 579405011819 Pirin-related protein [General function prediction only]; Region: COG1741 579405011820 Pirin; Region: Pirin; pfam02678 579405011821 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 579405011822 metal binding site 2 [ion binding]; metal-binding site 579405011823 putative DNA binding helix; other site 579405011824 metal binding site 1 [ion binding]; metal-binding site 579405011825 dimer interface [polypeptide binding]; other site 579405011826 structural Zn2+ binding site [ion binding]; other site 579405011827 LexA repressor; Validated; Region: PRK00215 579405011828 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 579405011829 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 579405011830 Catalytic site [active] 579405011831 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 579405011832 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 579405011833 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 579405011834 putative acyl-acceptor binding pocket; other site 579405011835 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 579405011836 UbiA prenyltransferase family; Region: UbiA; pfam01040 579405011837 Chorismate lyase; Region: Chor_lyase; cl01230 579405011838 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 579405011839 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 579405011840 ring oligomerisation interface [polypeptide binding]; other site 579405011841 ATP/Mg binding site [chemical binding]; other site 579405011842 stacking interactions; other site 579405011843 hinge regions; other site 579405011844 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 579405011845 oligomerisation interface [polypeptide binding]; other site 579405011846 mobile loop; other site 579405011847 roof hairpin; other site 579405011848 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 579405011849 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 579405011850 Aspartase; Region: Aspartase; cd01357 579405011851 active sites [active] 579405011852 tetramer interface [polypeptide binding]; other site 579405011853 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 579405011854 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 579405011855 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 579405011856 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 579405011857 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 579405011858 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 579405011859 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 579405011860 DsbD alpha interface [polypeptide binding]; other site 579405011861 catalytic residues [active] 579405011862 putative transcriptional regulator; Provisional; Region: PRK11640 579405011863 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 579405011864 integrase; Provisional; Region: PRK09692 579405011865 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 579405011866 active site 579405011867 Int/Topo IB signature motif; other site 579405011868 plasmid maintenance protein CcdA; Provisional; Region: PRK13710 579405011869 plasmid maintenance protein CcdB; Provisional; Region: PRK13708 579405011870 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 579405011871 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 579405011872 putative active site [active] 579405011873 putative NTP binding site [chemical binding]; other site 579405011874 putative nucleic acid binding site [nucleotide binding]; other site 579405011875 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 579405011876 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 579405011877 non-specific DNA binding site [nucleotide binding]; other site 579405011878 salt bridge; other site 579405011879 sequence-specific DNA binding site [nucleotide binding]; other site 579405011880 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 579405011881 Fic family protein [Function unknown]; Region: COG3177 579405011882 Fic/DOC family; Region: Fic; pfam02661 579405011883 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 579405011884 Coenzyme A binding pocket [chemical binding]; other site 579405011885 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 579405011886 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 579405011887 RES domain; Region: RES; smart00953 579405011888 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 579405011889 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 579405011890 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 579405011891 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 579405011892 S-adenosylmethionine binding site [chemical binding]; other site 579405011893 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 579405011894 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 579405011895 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 579405011896 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 579405011897 RNA polymerase sigma factor; Reviewed; Region: PRK05602 579405011898 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 579405011899 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 579405011900 Heavy-metal resistance; Region: Metal_resist; pfam13801 579405011901 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 579405011902 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 579405011903 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 579405011904 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 579405011905 DNA binding residues [nucleotide binding] 579405011906 dimer interface [polypeptide binding]; other site 579405011907 putative metal binding site [ion binding]; other site 579405011908 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 579405011909 Heavy-metal-associated domain; Region: HMA; pfam00403 579405011910 metal-binding site [ion binding] 579405011911 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 579405011912 Soluble P-type ATPase [General function prediction only]; Region: COG4087 579405011913 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 579405011914 metabolite-proton symporter; Region: 2A0106; TIGR00883 579405011915 putative substrate translocation pore; other site 579405011916 amidase; Provisional; Region: PRK07056 579405011917 Amidase; Region: Amidase; cl11426 579405011918 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 579405011919 Transcriptional regulators [Transcription]; Region: GntR; COG1802 579405011920 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405011921 DNA-binding site [nucleotide binding]; DNA binding site 579405011922 FCD domain; Region: FCD; pfam07729 579405011923 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 579405011924 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 579405011925 trimer interface [polypeptide binding]; other site 579405011926 active site 579405011927 substrate binding site [chemical binding]; other site 579405011928 CoA binding site [chemical binding]; other site 579405011929 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 579405011930 Domain of unknown function (DUF1868); Region: 2H-phosphodiest; pfam08975 579405011931 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 579405011932 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 579405011933 catalytic residue [active] 579405011934 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 579405011935 catalytic residues [active] 579405011936 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 579405011937 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 579405011938 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 579405011939 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 579405011940 dimer interface [polypeptide binding]; other site 579405011941 decamer (pentamer of dimers) interface [polypeptide binding]; other site 579405011942 catalytic triad [active] 579405011943 peroxidatic and resolving cysteines [active] 579405011944 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 579405011945 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 579405011946 metal binding site [ion binding]; metal-binding site 579405011947 putative dimer interface [polypeptide binding]; other site 579405011948 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 579405011949 HD domain; Region: HD_4; pfam13328 579405011950 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 579405011951 dimer interface [polypeptide binding]; other site 579405011952 ligand binding site [chemical binding]; other site 579405011953 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 579405011954 dimerization interface [polypeptide binding]; other site 579405011955 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405011956 dimer interface [polypeptide binding]; other site 579405011957 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 579405011958 putative CheW interface [polypeptide binding]; other site 579405011959 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 579405011960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 579405011961 NAD(P) binding site [chemical binding]; other site 579405011962 active site 579405011963 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 579405011964 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 579405011965 active site 579405011966 CsbD-like; Region: CsbD; cl17424 579405011967 periplasmic protein; Provisional; Region: PRK10568 579405011968 BON domain; Region: BON; pfam04972 579405011969 BON domain; Region: BON; pfam04972 579405011970 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 579405011971 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 579405011972 G1 box; other site 579405011973 putative GEF interaction site [polypeptide binding]; other site 579405011974 GTP/Mg2+ binding site [chemical binding]; other site 579405011975 Switch I region; other site 579405011976 G2 box; other site 579405011977 G3 box; other site 579405011978 Switch II region; other site 579405011979 G4 box; other site 579405011980 G5 box; other site 579405011981 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 579405011982 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 579405011983 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 579405011984 S-adenosylmethionine binding site [chemical binding]; other site 579405011985 hypothetical protein; Provisional; Region: PRK11246 579405011986 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 579405011987 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 579405011988 motif II; other site 579405011989 DNA repair protein RadA; Region: sms; TIGR00416 579405011990 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 579405011991 Walker A motif/ATP binding site; other site 579405011992 ATP binding site [chemical binding]; other site 579405011993 Walker B motif; other site 579405011994 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 579405011995 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 579405011996 non-specific DNA binding site [nucleotide binding]; other site 579405011997 salt bridge; other site 579405011998 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 579405011999 sequence-specific DNA binding site [nucleotide binding]; other site 579405012000 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 579405012001 active site 579405012002 (T/H)XGH motif; other site 579405012003 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 579405012004 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 579405012005 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 579405012006 Z-ring-associated protein; Provisional; Region: PRK10972 579405012007 hypothetical protein; Reviewed; Region: PRK01736 579405012008 proline aminopeptidase P II; Provisional; Region: PRK10879 579405012009 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 579405012010 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 579405012011 active site 579405012012 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 579405012013 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 579405012014 oxidoreductase; Provisional; Region: PRK08013 579405012015 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 579405012016 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 579405012017 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 579405012018 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_15; cd08492 579405012019 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 579405012020 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 579405012021 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 579405012022 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 579405012023 dimer interface [polypeptide binding]; other site 579405012024 conserved gate region; other site 579405012025 putative PBP binding loops; other site 579405012026 ABC-ATPase subunit interface; other site 579405012027 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 579405012028 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405012029 Walker A/P-loop; other site 579405012030 ATP binding site [chemical binding]; other site 579405012031 Q-loop/lid; other site 579405012032 ABC transporter signature motif; other site 579405012033 Walker B; other site 579405012034 D-loop; other site 579405012035 H-loop/switch region; other site 579405012036 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 579405012037 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405012038 Walker A/P-loop; other site 579405012039 ATP binding site [chemical binding]; other site 579405012040 Q-loop/lid; other site 579405012041 ABC transporter signature motif; other site 579405012042 Walker B; other site 579405012043 D-loop; other site 579405012044 H-loop/switch region; other site 579405012045 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405012046 transcriptional activator RhaR; Provisional; Region: PRK13501 579405012047 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 579405012048 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405012049 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405012050 transcriptional activator RhaS; Provisional; Region: PRK13503 579405012051 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 579405012052 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405012053 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 579405012054 N- and C-terminal domain interface [polypeptide binding]; other site 579405012055 active site 579405012056 putative catalytic site [active] 579405012057 metal binding site [ion binding]; metal-binding site 579405012058 ATP binding site [chemical binding]; other site 579405012059 rhamnulokinase; Provisional; Region: rhaB; PRK10640 579405012060 carbohydrate binding site [chemical binding]; other site 579405012061 L-rhamnose isomerase; Provisional; Region: PRK01076 579405012062 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 579405012063 rhamnulose-1-phosphate aldolase; Provisional; Region: PRK03634 579405012064 intersubunit interface [polypeptide binding]; other site 579405012065 active site 579405012066 Zn2+ binding site [ion binding]; other site 579405012067 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 579405012068 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 579405012069 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405012070 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405012071 dimer interface [polypeptide binding]; other site 579405012072 putative CheW interface [polypeptide binding]; other site 579405012073 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 579405012074 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405012075 Walker A/P-loop; other site 579405012076 ATP binding site [chemical binding]; other site 579405012077 Q-loop/lid; other site 579405012078 ABC transporter signature motif; other site 579405012079 Walker B; other site 579405012080 D-loop; other site 579405012081 H-loop/switch region; other site 579405012082 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405012083 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 579405012084 Walker A/P-loop; other site 579405012085 ATP binding site [chemical binding]; other site 579405012086 Q-loop/lid; other site 579405012087 ABC transporter signature motif; other site 579405012088 Walker B; other site 579405012089 D-loop; other site 579405012090 H-loop/switch region; other site 579405012091 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 579405012092 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 579405012093 Zn2+ binding site [ion binding]; other site 579405012094 Mg2+ binding site [ion binding]; other site 579405012095 H+ Antiporter protein; Region: 2A0121; TIGR00900 579405012096 chorismate mutase; Provisional; Region: PRK08055 579405012097 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 579405012098 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 579405012099 putative DNA binding site [nucleotide binding]; other site 579405012100 putative Zn2+ binding site [ion binding]; other site 579405012101 AsnC family; Region: AsnC_trans_reg; pfam01037 579405012102 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 579405012103 Predicted ATPase [General function prediction only]; Region: COG4637 579405012104 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405012105 Walker A/P-loop; other site 579405012106 ATP binding site [chemical binding]; other site 579405012107 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405012108 ABC transporter signature motif; other site 579405012109 Walker B; other site 579405012110 D-loop; other site 579405012111 H-loop/switch region; other site 579405012112 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 579405012113 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 579405012114 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405012115 catalytic residue [active] 579405012116 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405012117 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405012118 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 579405012119 dimerization interface [polypeptide binding]; other site 579405012120 hypothetical protein; Provisional; Region: PRK07079 579405012121 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 579405012122 metal binding site [ion binding]; metal-binding site 579405012123 putative dimer interface [polypeptide binding]; other site 579405012124 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 579405012125 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405012126 Walker A/P-loop; other site 579405012127 ATP binding site [chemical binding]; other site 579405012128 Q-loop/lid; other site 579405012129 ABC transporter signature motif; other site 579405012130 Walker B; other site 579405012131 D-loop; other site 579405012132 H-loop/switch region; other site 579405012133 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 579405012134 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 579405012135 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405012136 Walker A/P-loop; other site 579405012137 ATP binding site [chemical binding]; other site 579405012138 Q-loop/lid; other site 579405012139 ABC transporter signature motif; other site 579405012140 Walker B; other site 579405012141 D-loop; other site 579405012142 H-loop/switch region; other site 579405012143 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405012144 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 579405012145 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 579405012146 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 579405012147 dimer interface [polypeptide binding]; other site 579405012148 conserved gate region; other site 579405012149 putative PBP binding loops; other site 579405012150 ABC-ATPase subunit interface; other site 579405012151 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 579405012152 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 579405012153 dimer interface [polypeptide binding]; other site 579405012154 conserved gate region; other site 579405012155 putative PBP binding loops; other site 579405012156 ABC-ATPase subunit interface; other site 579405012157 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 579405012158 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_10; cd08515 579405012159 Bacillus thuringiensis toxin; Region: Bac_thur_toxin; pfam01338 579405012160 Bacillus thuringiensis toxin; Region: Bac_thur_toxin; pfam01338 579405012161 Bacillus thuringiensis toxin; Region: Bac_thur_toxin; pfam01338 579405012162 Bacillus thuringiensis toxin; Region: Bac_thur_toxin; pfam01338 579405012163 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 579405012164 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 579405012165 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 579405012166 active site 579405012167 catalytic site [active] 579405012168 Zn binding site [ion binding]; other site 579405012169 tetramer interface [polypeptide binding]; other site 579405012170 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 579405012171 active site 579405012172 catalytic site [active] 579405012173 Zn binding site [ion binding]; other site 579405012174 tetramer interface [polypeptide binding]; other site 579405012175 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 579405012176 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 579405012177 substrate binding pocket [chemical binding]; other site 579405012178 membrane-bound complex binding site; other site 579405012179 hinge residues; other site 579405012180 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 579405012181 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 579405012182 Walker A/P-loop; other site 579405012183 ATP binding site [chemical binding]; other site 579405012184 Q-loop/lid; other site 579405012185 ABC transporter signature motif; other site 579405012186 Walker B; other site 579405012187 D-loop; other site 579405012188 H-loop/switch region; other site 579405012189 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 579405012190 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 579405012191 dimer interface [polypeptide binding]; other site 579405012192 conserved gate region; other site 579405012193 putative PBP binding loops; other site 579405012194 ABC-ATPase subunit interface; other site 579405012195 argininosuccinate lyase; Provisional; Region: PRK00855 579405012196 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 579405012197 active sites [active] 579405012198 tetramer interface [polypeptide binding]; other site 579405012199 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405012200 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405012201 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 579405012202 dimerization interface [polypeptide binding]; other site 579405012203 HNH endonuclease; Region: HNH_2; pfam13391 579405012204 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 579405012205 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 579405012206 NAD binding site [chemical binding]; other site 579405012207 homotetramer interface [polypeptide binding]; other site 579405012208 homodimer interface [polypeptide binding]; other site 579405012209 active site 579405012210 substrate binding site [chemical binding]; other site 579405012211 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 579405012212 bacterial glycerol kinase 2-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GK2_bacteria; cd07791 579405012213 N- and C-terminal domain interface [polypeptide binding]; other site 579405012214 active site 579405012215 MgATP binding site [chemical binding]; other site 579405012216 catalytic site [active] 579405012217 metal binding site [ion binding]; metal-binding site 579405012218 putative homotetramer interface [polypeptide binding]; other site 579405012219 putative homodimer interface [polypeptide binding]; other site 579405012220 glycerol binding site [chemical binding]; other site 579405012221 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 579405012222 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 579405012223 TM-ABC transporter signature motif; other site 579405012224 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 579405012225 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 579405012226 Walker A/P-loop; other site 579405012227 ATP binding site [chemical binding]; other site 579405012228 Q-loop/lid; other site 579405012229 ABC transporter signature motif; other site 579405012230 Walker B; other site 579405012231 D-loop; other site 579405012232 H-loop/switch region; other site 579405012233 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 579405012234 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; cl02395 579405012235 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 579405012236 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 579405012237 short chain dehydrogenase; Provisional; Region: PRK06841 579405012238 classical (c) SDRs; Region: SDR_c; cd05233 579405012239 NAD(P) binding site [chemical binding]; other site 579405012240 active site 579405012241 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 579405012242 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 579405012243 PYR/PP interface [polypeptide binding]; other site 579405012244 dimer interface [polypeptide binding]; other site 579405012245 TPP binding site [chemical binding]; other site 579405012246 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 579405012247 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 579405012248 TPP-binding site [chemical binding]; other site 579405012249 dimer interface [polypeptide binding]; other site 579405012250 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 579405012251 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 579405012252 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 579405012253 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 579405012254 Major Facilitator Superfamily; Region: MFS_1; pfam07690 579405012255 putative substrate translocation pore; other site 579405012256 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 579405012257 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 579405012258 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 579405012259 LysE type translocator; Region: LysE; cl00565 579405012260 Pirin-related protein [General function prediction only]; Region: COG1741 579405012261 Pirin; Region: Pirin; pfam02678 579405012262 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 579405012263 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 579405012264 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 579405012265 non-specific DNA binding site [nucleotide binding]; other site 579405012266 salt bridge; other site 579405012267 sequence-specific DNA binding site [nucleotide binding]; other site 579405012268 integrase; Provisional; Region: PRK09692 579405012269 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 579405012270 active site 579405012271 Int/Topo IB signature motif; other site 579405012272 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 579405012273 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 579405012274 Homeodomain-like domain; Region: HTH_23; pfam13384 579405012275 Winged helix-turn helix; Region: HTH_29; pfam13551 579405012276 Winged helix-turn helix; Region: HTH_33; pfam13592 579405012277 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 579405012278 DDE superfamily endonuclease; Region: DDE_3; pfam13358 579405012279 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 579405012280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 579405012281 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 579405012282 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 579405012283 active site 579405012284 metal binding site [ion binding]; metal-binding site 579405012285 AAA domain; Region: AAA_25; pfam13481 579405012286 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 579405012287 ATP binding site [chemical binding]; other site 579405012288 Walker B motif; other site 579405012289 Ash protein family; Region: Phage_ASH; pfam10554 579405012290 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 579405012291 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 579405012292 Integrase; Region: Integrase_1; pfam12835 579405012293 Predicted ATPase [General function prediction only]; Region: COG4637 579405012294 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405012295 Walker A/P-loop; other site 579405012296 ATP binding site [chemical binding]; other site 579405012297 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405012298 ABC transporter signature motif; other site 579405012299 Walker B; other site 579405012300 D-loop; other site 579405012301 H-loop/switch region; other site 579405012302 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 579405012303 integrase; Provisional; Region: PRK09692 579405012304 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 579405012305 active site 579405012306 Int/Topo IB signature motif; other site 579405012307 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 579405012308 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 579405012309 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 579405012310 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 579405012311 multifunctional aminopeptidase A; Provisional; Region: PRK00913 579405012312 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 579405012313 interface (dimer of trimers) [polypeptide binding]; other site 579405012314 Substrate-binding/catalytic site; other site 579405012315 Zn-binding sites [ion binding]; other site 579405012316 DNA polymerase III subunit chi; Validated; Region: PRK05728 579405012317 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 579405012318 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 579405012319 HIGH motif; other site 579405012320 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 579405012321 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 579405012322 active site 579405012323 KMSKS motif; other site 579405012324 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 579405012325 tRNA binding surface [nucleotide binding]; other site 579405012326 anticodon binding site; other site 579405012327 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 579405012328 Tar ligand binding domain homologue; Region: TarH; pfam02203 579405012329 dimer interface [polypeptide binding]; other site 579405012330 ligand binding site [chemical binding]; other site 579405012331 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 579405012332 dimerization interface [polypeptide binding]; other site 579405012333 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405012334 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405012335 dimer interface [polypeptide binding]; other site 579405012336 putative CheW interface [polypeptide binding]; other site 579405012337 hypothetical protein; Provisional; Region: PRK06489 579405012338 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 579405012339 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405012340 Coenzyme A binding pocket [chemical binding]; other site 579405012341 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 579405012342 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 579405012343 sequence-specific DNA binding site [nucleotide binding]; other site 579405012344 salt bridge; other site 579405012345 Cupin domain; Region: Cupin_2; cl17218 579405012346 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405012347 Coenzyme A binding pocket [chemical binding]; other site 579405012348 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 579405012349 RNase E inhibitor protein; Provisional; Region: PRK11191 579405012350 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 579405012351 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 579405012352 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 579405012353 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 579405012354 beta-galactosidase; Region: BGL; TIGR03356 579405012355 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 579405012356 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 579405012357 active site turn [active] 579405012358 phosphorylation site [posttranslational modification] 579405012359 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 579405012360 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 579405012361 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 579405012362 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 579405012363 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 579405012364 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 579405012365 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 579405012366 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 579405012367 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 579405012368 homotrimer interaction site [polypeptide binding]; other site 579405012369 putative active site [active] 579405012370 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 579405012371 Uncharacterized conserved protein [Function unknown]; Region: COG2308 579405012372 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 579405012373 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 579405012374 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 579405012375 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 579405012376 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 579405012377 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 579405012378 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 579405012379 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 579405012380 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 579405012381 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 579405012382 ATP cone domain; Region: ATP-cone; pfam03477 579405012383 Class III ribonucleotide reductase; Region: RNR_III; cd01675 579405012384 effector binding site; other site 579405012385 active site 579405012386 Zn binding site [ion binding]; other site 579405012387 glycine loop; other site 579405012388 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 579405012389 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 579405012390 FeS/SAM binding site; other site 579405012391 hypothetical protein; Provisional; Region: PRK03467 579405012392 Methyltransferase domain; Region: Methyltransf_23; pfam13489 579405012393 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 579405012394 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 579405012395 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 579405012396 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 579405012397 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09756 579405012398 CT1975-like protein; Region: Cas_CT1975; pfam09344 579405012399 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 579405012400 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 579405012401 helicase Cas3; Provisional; Region: PRK09694 579405012402 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 579405012403 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 579405012404 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 579405012405 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 579405012406 putative substrate binding site [chemical binding]; other site 579405012407 putative ATP binding site [chemical binding]; other site 579405012408 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 579405012409 trimer interface; other site 579405012410 sugar binding site [chemical binding]; other site 579405012411 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 579405012412 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 579405012413 active site turn [active] 579405012414 phosphorylation site [posttranslational modification] 579405012415 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 579405012416 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 579405012417 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 579405012418 substrate binding [chemical binding]; other site 579405012419 active site 579405012420 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 579405012421 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 579405012422 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 579405012423 DNA binding site [nucleotide binding] 579405012424 domain linker motif; other site 579405012425 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 579405012426 dimerization interface [polypeptide binding]; other site 579405012427 ligand binding site [chemical binding]; other site 579405012428 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 579405012429 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 579405012430 biopolymer transport protein ExbB; Provisional; Region: PRK10414 579405012431 cystathionine beta-lyase; Provisional; Region: PRK08114 579405012432 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 579405012433 homodimer interface [polypeptide binding]; other site 579405012434 substrate-cofactor binding pocket; other site 579405012435 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405012436 catalytic residue [active] 579405012437 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 579405012438 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 579405012439 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 579405012440 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 579405012441 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405012442 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 579405012443 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 579405012444 dimer interface [polypeptide binding]; other site 579405012445 FMN binding site [chemical binding]; other site 579405012446 NADPH bind site [chemical binding]; other site 579405012447 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 579405012448 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 579405012449 dimer interface [polypeptide binding]; other site 579405012450 active site 579405012451 metal binding site [ion binding]; metal-binding site 579405012452 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 579405012453 active site 579405012454 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 579405012455 catalytic tetrad [active] 579405012456 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 579405012457 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405012458 DNA-binding site [nucleotide binding]; DNA binding site 579405012459 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 579405012460 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 579405012461 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 579405012462 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 579405012463 Na binding site [ion binding]; other site 579405012464 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 579405012465 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 579405012466 substrate binding site [chemical binding]; other site 579405012467 ATP binding site [chemical binding]; other site 579405012468 FtsI repressor; Provisional; Region: PRK10883 579405012469 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 579405012470 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 579405012471 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 579405012472 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 579405012473 putative acyl-acceptor binding pocket; other site 579405012474 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 579405012475 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 579405012476 CAP-like domain; other site 579405012477 active site 579405012478 primary dimer interface [polypeptide binding]; other site 579405012479 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 579405012480 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405012481 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405012482 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 579405012483 dimerization interface [polypeptide binding]; other site 579405012484 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 579405012485 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 579405012486 ATP binding site [chemical binding]; other site 579405012487 Mg2+ binding site [ion binding]; other site 579405012488 G-X-G motif; other site 579405012489 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 579405012490 anchoring element; other site 579405012491 dimer interface [polypeptide binding]; other site 579405012492 ATP binding site [chemical binding]; other site 579405012493 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 579405012494 active site 579405012495 metal binding site [ion binding]; metal-binding site 579405012496 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 579405012497 esterase YqiA; Provisional; Region: PRK11071 579405012498 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 579405012499 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 579405012500 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 579405012501 active site 579405012502 metal binding site [ion binding]; metal-binding site 579405012503 hexamer interface [polypeptide binding]; other site 579405012504 putative dehydrogenase; Provisional; Region: PRK11039 579405012505 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 579405012506 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 579405012507 dimer interface [polypeptide binding]; other site 579405012508 ADP-ribose binding site [chemical binding]; other site 579405012509 active site 579405012510 nudix motif; other site 579405012511 metal binding site [ion binding]; metal-binding site 579405012512 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 579405012513 hypothetical protein; Provisional; Region: PRK11653 579405012514 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 579405012515 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 579405012516 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 579405012517 putative active site [active] 579405012518 metal binding site [ion binding]; metal-binding site 579405012519 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 579405012520 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 579405012521 putative SAM binding site [chemical binding]; other site 579405012522 putative homodimer interface [polypeptide binding]; other site 579405012523 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 579405012524 putative ligand binding site [chemical binding]; other site 579405012525 hypothetical protein; Reviewed; Region: PRK12497 579405012526 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 579405012527 dimer interface [polypeptide binding]; other site 579405012528 active site 579405012529 outer membrane lipoprotein; Provisional; Region: PRK11023 579405012530 BON domain; Region: BON; pfam04972 579405012531 BON domain; Region: BON; pfam04972 579405012532 Alginate lyase; Region: Alginate_lyase; pfam05426 579405012533 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 579405012534 Transglycosylase; Region: Transgly; cl17702 579405012535 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 579405012536 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 579405012537 conserved cys residue [active] 579405012538 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 579405012539 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 579405012540 putative active site [active] 579405012541 heme pocket [chemical binding]; other site 579405012542 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 579405012543 dimer interface [polypeptide binding]; other site 579405012544 phosphorylation site [posttranslational modification] 579405012545 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 579405012546 ATP binding site [chemical binding]; other site 579405012547 Mg2+ binding site [ion binding]; other site 579405012548 G-X-G motif; other site 579405012549 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 579405012550 active site 579405012551 phosphorylation site [posttranslational modification] 579405012552 intermolecular recognition site; other site 579405012553 dimerization interface [polypeptide binding]; other site 579405012554 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 579405012555 putative binding surface; other site 579405012556 active site 579405012557 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 579405012558 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 579405012559 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 579405012560 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 579405012561 active site 579405012562 dimer interface [polypeptide binding]; other site 579405012563 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 579405012564 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 579405012565 active site 579405012566 FMN binding site [chemical binding]; other site 579405012567 substrate binding site [chemical binding]; other site 579405012568 3Fe-4S cluster binding site [ion binding]; other site 579405012569 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 579405012570 domain interface; other site 579405012571 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 579405012572 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 579405012573 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 579405012574 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 579405012575 stringent starvation protein A; Provisional; Region: sspA; PRK09481 579405012576 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 579405012577 C-terminal domain interface [polypeptide binding]; other site 579405012578 putative GSH binding site (G-site) [chemical binding]; other site 579405012579 dimer interface [polypeptide binding]; other site 579405012580 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 579405012581 dimer interface [polypeptide binding]; other site 579405012582 N-terminal domain interface [polypeptide binding]; other site 579405012583 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 579405012584 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 579405012585 23S rRNA interface [nucleotide binding]; other site 579405012586 L3 interface [polypeptide binding]; other site 579405012587 Predicted ATPase [General function prediction only]; Region: COG1485 579405012588 hypothetical protein; Provisional; Region: PRK11677 579405012589 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 579405012590 serine endoprotease; Provisional; Region: PRK10139 579405012591 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 579405012592 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 579405012593 protein binding site [polypeptide binding]; other site 579405012594 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 579405012595 serine endoprotease; Provisional; Region: PRK10898 579405012596 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 579405012597 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 579405012598 protein binding site [polypeptide binding]; other site 579405012599 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 579405012600 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 579405012601 hinge; other site 579405012602 active site 579405012603 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 579405012604 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 579405012605 anti sigma factor interaction site; other site 579405012606 regulatory phosphorylation site [posttranslational modification]; other site 579405012607 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 579405012608 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 579405012609 mce related protein; Region: MCE; pfam02470 579405012610 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 579405012611 conserved hypothetical integral membrane protein; Region: TIGR00056 579405012612 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 579405012613 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 579405012614 Walker A/P-loop; other site 579405012615 ATP binding site [chemical binding]; other site 579405012616 Q-loop/lid; other site 579405012617 ABC transporter signature motif; other site 579405012618 Walker B; other site 579405012619 D-loop; other site 579405012620 H-loop/switch region; other site 579405012621 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 579405012622 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 579405012623 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 579405012624 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 579405012625 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 579405012626 putative active site [active] 579405012627 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 579405012628 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 579405012629 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 579405012630 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 579405012631 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 579405012632 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 579405012633 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 579405012634 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 579405012635 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 579405012636 Walker A/P-loop; other site 579405012637 ATP binding site [chemical binding]; other site 579405012638 Q-loop/lid; other site 579405012639 ABC transporter signature motif; other site 579405012640 Walker B; other site 579405012641 D-loop; other site 579405012642 H-loop/switch region; other site 579405012643 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 579405012644 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 579405012645 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 579405012646 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 579405012647 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 579405012648 30S subunit binding site; other site 579405012649 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 579405012650 active site 579405012651 phosphorylation site [posttranslational modification] 579405012652 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 579405012653 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 579405012654 dimerization domain swap beta strand [polypeptide binding]; other site 579405012655 regulatory protein interface [polypeptide binding]; other site 579405012656 active site 579405012657 regulatory phosphorylation site [posttranslational modification]; other site 579405012658 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 579405012659 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 579405012660 peptidase PmbA; Provisional; Region: PRK11040 579405012661 hypothetical protein; Provisional; Region: PRK05255 579405012662 LysE type translocator; Region: LysE; cl00565 579405012663 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 579405012664 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 579405012665 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 579405012666 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 579405012667 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 579405012668 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 579405012669 HlyD family secretion protein; Region: HlyD_3; pfam13437 579405012670 efflux system membrane protein; Provisional; Region: PRK11594 579405012671 transcriptional regulator; Provisional; Region: PRK10632 579405012672 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405012673 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 579405012674 putative effector binding pocket; other site 579405012675 dimerization interface [polypeptide binding]; other site 579405012676 protease TldD; Provisional; Region: tldD; PRK10735 579405012677 hypothetical protein; Provisional; Region: PRK10899 579405012678 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 579405012679 ribonuclease G; Provisional; Region: PRK11712 579405012680 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 579405012681 homodimer interface [polypeptide binding]; other site 579405012682 oligonucleotide binding site [chemical binding]; other site 579405012683 Maf-like protein; Region: Maf; pfam02545 579405012684 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 579405012685 active site 579405012686 dimer interface [polypeptide binding]; other site 579405012687 rod shape-determining protein MreD; Provisional; Region: PRK11060 579405012688 rod shape-determining protein MreC; Region: mreC; TIGR00219 579405012689 rod shape-determining protein MreC; Region: MreC; pfam04085 579405012690 rod shape-determining protein MreB; Provisional; Region: PRK13927 579405012691 MreB and similar proteins; Region: MreB_like; cd10225 579405012692 nucleotide binding site [chemical binding]; other site 579405012693 Mg binding site [ion binding]; other site 579405012694 putative protofilament interaction site [polypeptide binding]; other site 579405012695 RodZ interaction site [polypeptide binding]; other site 579405012696 regulatory protein CsrD; Provisional; Region: PRK11059 579405012697 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 579405012698 metal binding site [ion binding]; metal-binding site 579405012699 active site 579405012700 I-site; other site 579405012701 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 579405012702 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 579405012703 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 579405012704 NADP binding site [chemical binding]; other site 579405012705 dimer interface [polypeptide binding]; other site 579405012706 TMAO/DMSO reductase; Reviewed; Region: PRK05363 579405012707 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 579405012708 Moco binding site; other site 579405012709 metal coordination site [ion binding]; other site 579405012710 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 579405012711 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 579405012712 Dehydroquinase class II; Region: DHquinase_II; pfam01220 579405012713 active site 579405012714 trimer interface [polypeptide binding]; other site 579405012715 dimer interface [polypeptide binding]; other site 579405012716 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 579405012717 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 579405012718 carboxyltransferase (CT) interaction site; other site 579405012719 biotinylation site [posttranslational modification]; other site 579405012720 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 579405012721 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 579405012722 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 579405012723 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 579405012724 hypothetical protein; Provisional; Region: PRK10633 579405012725 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 579405012726 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 579405012727 Na binding site [ion binding]; other site 579405012728 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 579405012729 Methyltransferase domain; Region: Methyltransf_18; pfam12847 579405012730 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 579405012731 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 579405012732 FMN binding site [chemical binding]; other site 579405012733 active site 579405012734 catalytic residues [active] 579405012735 substrate binding site [chemical binding]; other site 579405012736 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 579405012737 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 579405012738 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 579405012739 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405012740 AAA domain; Region: AAA_21; pfam13304 579405012741 Walker A/P-loop; other site 579405012742 ATP binding site [chemical binding]; other site 579405012743 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 579405012744 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 579405012745 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 579405012746 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 579405012747 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 579405012748 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 579405012749 metal binding site [ion binding]; metal-binding site 579405012750 active site 579405012751 I-site; other site 579405012752 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 579405012753 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 579405012754 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405012755 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405012756 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 579405012757 putative substrate binding pocket [chemical binding]; other site 579405012758 putative dimerization interface [polypeptide binding]; other site 579405012759 Predicted amidohydrolase [General function prediction only]; Region: COG0388 579405012760 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 579405012761 putative active site [active] 579405012762 catalytic triad [active] 579405012763 putative dimer interface [polypeptide binding]; other site 579405012764 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 579405012765 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 579405012766 substrate binding pocket [chemical binding]; other site 579405012767 membrane-bound complex binding site; other site 579405012768 hinge residues; other site 579405012769 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 579405012770 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 579405012771 dimer interface [polypeptide binding]; other site 579405012772 conserved gate region; other site 579405012773 putative PBP binding loops; other site 579405012774 ABC-ATPase subunit interface; other site 579405012775 hypothetical protein; Validated; Region: PRK06186 579405012776 conserved cys residue [active] 579405012777 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 579405012778 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 579405012779 substrate binding pocket [chemical binding]; other site 579405012780 membrane-bound complex binding site; other site 579405012781 hinge residues; other site 579405012782 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 579405012783 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 579405012784 conserved gate region; other site 579405012785 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 579405012786 dimer interface [polypeptide binding]; other site 579405012787 conserved gate region; other site 579405012788 putative PBP binding loops; other site 579405012789 ABC-ATPase subunit interface; other site 579405012790 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 579405012791 dimer interface [polypeptide binding]; other site 579405012792 conserved gate region; other site 579405012793 putative PBP binding loops; other site 579405012794 ABC-ATPase subunit interface; other site 579405012795 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 579405012796 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 579405012797 Walker A/P-loop; other site 579405012798 ATP binding site [chemical binding]; other site 579405012799 Q-loop/lid; other site 579405012800 ABC transporter signature motif; other site 579405012801 Walker B; other site 579405012802 D-loop; other site 579405012803 H-loop/switch region; other site 579405012804 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 579405012805 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 579405012806 purine monophosphate binding site [chemical binding]; other site 579405012807 dimer interface [polypeptide binding]; other site 579405012808 putative catalytic residues [active] 579405012809 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 579405012810 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 579405012811 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 579405012812 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 579405012813 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 579405012814 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 579405012815 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 579405012816 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 579405012817 IHF dimer interface [polypeptide binding]; other site 579405012818 IHF - DNA interface [nucleotide binding]; other site 579405012819 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 579405012820 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 579405012821 Active_site [active] 579405012822 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 579405012823 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 579405012824 substrate binding site [chemical binding]; other site 579405012825 active site 579405012826 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 579405012827 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 579405012828 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 579405012829 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 579405012830 putative NADH binding site [chemical binding]; other site 579405012831 putative active site [active] 579405012832 nudix motif; other site 579405012833 putative metal binding site [ion binding]; other site 579405012834 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 579405012835 ThiC-associated domain; Region: ThiC-associated; pfam13667 579405012836 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 579405012837 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 579405012838 thiamine phosphate binding site [chemical binding]; other site 579405012839 active site 579405012840 pyrophosphate binding site [ion binding]; other site 579405012841 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 579405012842 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 579405012843 ATP binding site [chemical binding]; other site 579405012844 substrate interface [chemical binding]; other site 579405012845 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 579405012846 thiS-thiF/thiG interaction site; other site 579405012847 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 579405012848 ThiS interaction site; other site 579405012849 putative active site [active] 579405012850 tetramer interface [polypeptide binding]; other site 579405012851 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 579405012852 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 579405012853 FeS/SAM binding site; other site 579405012854 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 579405012855 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 579405012856 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 579405012857 dimerization interface [polypeptide binding]; other site 579405012858 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 579405012859 dimer interface [polypeptide binding]; other site 579405012860 phosphorylation site [posttranslational modification] 579405012861 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 579405012862 ATP binding site [chemical binding]; other site 579405012863 Mg2+ binding site [ion binding]; other site 579405012864 G-X-G motif; other site 579405012865 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 579405012866 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 579405012867 active site 579405012868 phosphorylation site [posttranslational modification] 579405012869 intermolecular recognition site; other site 579405012870 dimerization interface [polypeptide binding]; other site 579405012871 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 579405012872 DNA binding site [nucleotide binding] 579405012873 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 579405012874 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 579405012875 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 579405012876 Moco binding site; other site 579405012877 metal coordination site [ion binding]; other site 579405012878 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 579405012879 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405012880 DNA-binding site [nucleotide binding]; DNA binding site 579405012881 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 579405012882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405012883 homodimer interface [polypeptide binding]; other site 579405012884 catalytic residue [active] 579405012885 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 579405012886 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405012887 DNA-binding site [nucleotide binding]; DNA binding site 579405012888 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 579405012889 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 579405012890 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 579405012891 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 579405012892 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 579405012893 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 579405012894 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 579405012895 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 579405012896 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 579405012897 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 579405012898 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 579405012899 DNA binding site [nucleotide binding] 579405012900 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 579405012901 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 579405012902 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 579405012903 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 579405012904 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 579405012905 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 579405012906 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 579405012907 RPB3 interaction site [polypeptide binding]; other site 579405012908 RPB1 interaction site [polypeptide binding]; other site 579405012909 RPB11 interaction site [polypeptide binding]; other site 579405012910 RPB10 interaction site [polypeptide binding]; other site 579405012911 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 579405012912 core dimer interface [polypeptide binding]; other site 579405012913 peripheral dimer interface [polypeptide binding]; other site 579405012914 L10 interface [polypeptide binding]; other site 579405012915 L11 interface [polypeptide binding]; other site 579405012916 putative EF-Tu interaction site [polypeptide binding]; other site 579405012917 putative EF-G interaction site [polypeptide binding]; other site 579405012918 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 579405012919 23S rRNA interface [nucleotide binding]; other site 579405012920 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 579405012921 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 579405012922 mRNA/rRNA interface [nucleotide binding]; other site 579405012923 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 579405012924 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 579405012925 23S rRNA interface [nucleotide binding]; other site 579405012926 L7/L12 interface [polypeptide binding]; other site 579405012927 putative thiostrepton binding site; other site 579405012928 L25 interface [polypeptide binding]; other site 579405012929 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 579405012930 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 579405012931 putative homodimer interface [polypeptide binding]; other site 579405012932 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 579405012933 heterodimer interface [polypeptide binding]; other site 579405012934 homodimer interface [polypeptide binding]; other site 579405012935 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 579405012936 elongation factor Tu; Reviewed; Region: PRK00049 579405012937 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 579405012938 G1 box; other site 579405012939 GEF interaction site [polypeptide binding]; other site 579405012940 GTP/Mg2+ binding site [chemical binding]; other site 579405012941 Switch I region; other site 579405012942 G2 box; other site 579405012943 G3 box; other site 579405012944 Switch II region; other site 579405012945 G4 box; other site 579405012946 G5 box; other site 579405012947 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 579405012948 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 579405012949 Antibiotic Binding Site [chemical binding]; other site 579405012950 pantothenate kinase; Provisional; Region: PRK05439 579405012951 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 579405012952 ATP-binding site [chemical binding]; other site 579405012953 CoA-binding site [chemical binding]; other site 579405012954 Mg2+-binding site [ion binding]; other site 579405012955 Biotin operon repressor [Transcription]; Region: BirA; COG1654 579405012956 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 579405012957 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 579405012958 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 579405012959 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 579405012960 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 579405012961 FAD binding domain; Region: FAD_binding_4; pfam01565 579405012962 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 579405012963 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 579405012964 potassium transporter; Provisional; Region: PRK10750 579405012965 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 579405012966 hypothetical protein; Provisional; Region: PRK11568 579405012967 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 579405012968 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 579405012969 proline dipeptidase; Provisional; Region: PRK13607 579405012970 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 579405012971 active site 579405012972 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 579405012973 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 579405012974 substrate binding site [chemical binding]; other site 579405012975 oxyanion hole (OAH) forming residues; other site 579405012976 trimer interface [polypeptide binding]; other site 579405012977 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 579405012978 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 579405012979 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 579405012980 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 579405012981 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 579405012982 dimer interface [polypeptide binding]; other site 579405012983 active site 579405012984 Predicted transporter component [General function prediction only]; Region: COG2391 579405012985 Sulphur transport; Region: Sulf_transp; pfam04143 579405012986 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 579405012987 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 579405012988 dimerization interface [polypeptide binding]; other site 579405012989 putative DNA binding site [nucleotide binding]; other site 579405012990 putative Zn2+ binding site [ion binding]; other site 579405012991 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 579405012992 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 579405012993 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 579405012994 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 579405012995 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 579405012996 active site residue [active] 579405012997 FMN reductase; Validated; Region: fre; PRK08051 579405012998 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 579405012999 FAD binding pocket [chemical binding]; other site 579405013000 FAD binding motif [chemical binding]; other site 579405013001 phosphate binding motif [ion binding]; other site 579405013002 beta-alpha-beta structure motif; other site 579405013003 NAD binding pocket [chemical binding]; other site 579405013004 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 579405013005 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 579405013006 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 579405013007 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 579405013008 dimer interface [polypeptide binding]; other site 579405013009 active site 579405013010 aspartate-rich active site metal binding site; other site 579405013011 allosteric magnesium binding site [ion binding]; other site 579405013012 Schiff base residues; other site 579405013013 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 579405013014 active site 579405013015 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 579405013016 sec-independent translocase; Provisional; Region: PRK01770 579405013017 twin arginine translocase protein A; Provisional; Region: tatA; PRK04598 579405013018 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 579405013019 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 579405013020 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 579405013021 SCP-2 sterol transfer family; Region: SCP2; pfam02036 579405013022 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 579405013023 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 579405013024 S-adenosylmethionine binding site [chemical binding]; other site 579405013025 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 579405013026 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 579405013027 RmuC family; Region: RmuC; pfam02646 579405013028 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 579405013029 Proline dehydrogenase; Region: Pro_dh; pfam01619 579405013030 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 579405013031 Glutamate binding site [chemical binding]; other site 579405013032 NAD binding site [chemical binding]; other site 579405013033 catalytic residues [active] 579405013034 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 579405013035 Na binding site [ion binding]; other site 579405013036 ketol-acid reductoisomerase; Validated; Region: PRK05225 579405013037 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 579405013038 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 579405013039 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 579405013040 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405013041 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 579405013042 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 579405013043 putative dimerization interface [polypeptide binding]; other site 579405013044 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 579405013045 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 579405013046 threonine dehydratase; Reviewed; Region: PRK09224 579405013047 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 579405013048 tetramer interface [polypeptide binding]; other site 579405013049 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405013050 catalytic residue [active] 579405013051 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 579405013052 putative Ile/Val binding site [chemical binding]; other site 579405013053 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 579405013054 putative Ile/Val binding site [chemical binding]; other site 579405013055 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 579405013056 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 579405013057 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 579405013058 homodimer interface [polypeptide binding]; other site 579405013059 substrate-cofactor binding pocket; other site 579405013060 catalytic residue [active] 579405013061 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 579405013062 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 579405013063 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 579405013064 PYR/PP interface [polypeptide binding]; other site 579405013065 dimer interface [polypeptide binding]; other site 579405013066 TPP binding site [chemical binding]; other site 579405013067 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 579405013068 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 579405013069 TPP-binding site [chemical binding]; other site 579405013070 dimer interface [polypeptide binding]; other site 579405013071 putative ATP-dependent protease; Provisional; Region: PRK09862 579405013072 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 579405013073 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 579405013074 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 579405013075 hypothetical protein; Provisional; Region: PRK11027 579405013076 transcriptional regulator HdfR; Provisional; Region: PRK03601 579405013077 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405013078 LysR substrate binding domain; Region: LysR_substrate; pfam03466 579405013079 dimerization interface [polypeptide binding]; other site 579405013080 Homeodomain-like domain; Region: HTH_23; pfam13384 579405013081 Winged helix-turn helix; Region: HTH_29; pfam13551 579405013082 Winged helix-turn helix; Region: HTH_33; pfam13592 579405013083 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 579405013084 DDE superfamily endonuclease; Region: DDE_3; pfam13358 579405013085 glutamate racemase; Provisional; Region: PRK00865 579405013086 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 579405013087 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 579405013088 N-terminal plug; other site 579405013089 ligand-binding site [chemical binding]; other site 579405013090 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 579405013091 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 579405013092 S-adenosylmethionine binding site [chemical binding]; other site 579405013093 hypothetical protein; Provisional; Region: PRK11056 579405013094 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 579405013095 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 579405013096 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 579405013097 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 579405013098 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 579405013099 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 579405013100 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405013101 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 579405013102 dimerization interface [polypeptide binding]; other site 579405013103 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 579405013104 FAD binding site [chemical binding]; other site 579405013105 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 579405013106 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 579405013107 putative catalytic residues [active] 579405013108 putative nucleotide binding site [chemical binding]; other site 579405013109 putative aspartate binding site [chemical binding]; other site 579405013110 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 579405013111 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 579405013112 cystathionine gamma-synthase; Provisional; Region: PRK08045 579405013113 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 579405013114 homodimer interface [polypeptide binding]; other site 579405013115 substrate-cofactor binding pocket; other site 579405013116 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405013117 catalytic residue [active] 579405013118 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 579405013119 dimerization interface [polypeptide binding]; other site 579405013120 DNA binding site [nucleotide binding] 579405013121 corepressor binding sites; other site 579405013122 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 579405013123 primosome assembly protein PriA; Validated; Region: PRK05580 579405013124 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 579405013125 ATP binding site [chemical binding]; other site 579405013126 putative Mg++ binding site [ion binding]; other site 579405013127 helicase superfamily c-terminal domain; Region: HELICc; smart00490 579405013128 ATP-binding site [chemical binding]; other site 579405013129 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 579405013130 DNA binding site [nucleotide binding] 579405013131 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 579405013132 domain linker motif; other site 579405013133 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 579405013134 dimerization interface [polypeptide binding]; other site 579405013135 ligand binding site [chemical binding]; other site 579405013136 cell division protein FtsN; Provisional; Region: PRK12757 579405013137 Sporulation related domain; Region: SPOR; cl10051 579405013138 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 579405013139 active site 579405013140 HslU subunit interaction site [polypeptide binding]; other site 579405013141 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 579405013142 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 579405013143 Walker A motif; other site 579405013144 ATP binding site [chemical binding]; other site 579405013145 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 579405013146 Walker B motif; other site 579405013147 arginine finger; other site 579405013148 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 579405013149 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 579405013150 UbiA prenyltransferase family; Region: UbiA; pfam01040 579405013151 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 579405013152 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3074 579405013153 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 579405013154 amphipathic channel; other site 579405013155 Asn-Pro-Ala signature motifs; other site 579405013156 glycerol kinase; Provisional; Region: glpK; PRK00047 579405013157 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 579405013158 N- and C-terminal domain interface [polypeptide binding]; other site 579405013159 active site 579405013160 MgATP binding site [chemical binding]; other site 579405013161 catalytic site [active] 579405013162 metal binding site [ion binding]; metal-binding site 579405013163 glycerol binding site [chemical binding]; other site 579405013164 homotetramer interface [polypeptide binding]; other site 579405013165 homodimer interface [polypeptide binding]; other site 579405013166 FBP binding site [chemical binding]; other site 579405013167 protein IIAGlc interface [polypeptide binding]; other site 579405013168 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 579405013169 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 579405013170 putative active site [active] 579405013171 ferredoxin-NADP reductase; Provisional; Region: PRK10926 579405013172 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 579405013173 FAD binding pocket [chemical binding]; other site 579405013174 FAD binding motif [chemical binding]; other site 579405013175 phosphate binding motif [ion binding]; other site 579405013176 beta-alpha-beta structure motif; other site 579405013177 NAD binding pocket [chemical binding]; other site 579405013178 Predicted membrane protein [Function unknown]; Region: COG3152 579405013179 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 579405013180 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 579405013181 triosephosphate isomerase; Provisional; Region: PRK14567 579405013182 substrate binding site [chemical binding]; other site 579405013183 dimer interface [polypeptide binding]; other site 579405013184 catalytic triad [active] 579405013185 alkaline phosphatase; Provisional; Region: PRK10518 579405013186 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 579405013187 active site 579405013188 dimer interface [polypeptide binding]; other site 579405013189 agmatine deiminase; Provisional; Region: PRK13551 579405013190 agmatine deiminase; Region: agmatine_aguA; TIGR03380 579405013191 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 579405013192 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 579405013193 putative active site; other site 579405013194 catalytic triad [active] 579405013195 putative dimer interface [polypeptide binding]; other site 579405013196 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 579405013197 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 579405013198 active site 579405013199 ADP/pyrophosphate binding site [chemical binding]; other site 579405013200 dimerization interface [polypeptide binding]; other site 579405013201 allosteric effector site; other site 579405013202 fructose-1,6-bisphosphate binding site; other site 579405013203 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 579405013204 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 579405013205 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 579405013206 non-specific DNA binding site [nucleotide binding]; other site 579405013207 salt bridge; other site 579405013208 sequence-specific DNA binding site [nucleotide binding]; other site 579405013209 2TM domain; Region: 2TM; pfam13239 579405013210 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 579405013211 nudix motif; other site 579405013212 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 579405013213 Phage Tail Collar Domain; Region: Collar; pfam07484 579405013214 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 579405013215 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 579405013216 Phage Tail Collar Domain; Region: Collar; pfam07484 579405013217 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 579405013218 Baseplate J-like protein; Region: Baseplate_J; cl01294 579405013219 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 579405013220 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 579405013221 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 579405013222 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 579405013223 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 579405013224 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 579405013225 catalytic residue [active] 579405013226 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 579405013227 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 579405013228 terminase endonuclease subunit; Provisional; Region: M; PHA02537 579405013229 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 579405013230 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 579405013231 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 579405013232 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 579405013233 terminase ATPase subunit; Provisional; Region: P; PHA02535 579405013234 Phage-related protein [Function unknown]; Region: COG4695; cl01923 579405013235 Phage portal protein; Region: Phage_portal; pfam04860 579405013236 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 579405013237 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 579405013238 non-specific DNA binding site [nucleotide binding]; other site 579405013239 salt bridge; other site 579405013240 sequence-specific DNA binding site [nucleotide binding]; other site 579405013241 Domain of unknown function (DUF955); Region: DUF955; cl01076 579405013242 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 579405013243 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 579405013244 Ligand Binding Site [chemical binding]; other site 579405013245 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 579405013246 Active Sites [active] 579405013247 DNA adenine methylase (dam); Region: dam; TIGR00571 579405013248 DksA-like zinc finger domain containing protein; Region: PHA00080 579405013249 Protein of unknown function (DUF2732); Region: DUF2732; pfam10809 579405013250 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 579405013251 Regulatory phage protein cox; Region: Phage_Cox; pfam10743 579405013252 integrase; Provisional; Region: int; PHA02601 579405013253 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 579405013254 dimer interface [polypeptide binding]; other site 579405013255 active site 579405013256 catalytic residues [active] 579405013257 Int/Topo IB signature motif; other site 579405013258 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 579405013259 dimer interface [polypeptide binding]; other site 579405013260 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 579405013261 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 579405013262 active site 579405013263 phosphorylation site [posttranslational modification] 579405013264 intermolecular recognition site; other site 579405013265 dimerization interface [polypeptide binding]; other site 579405013266 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 579405013267 DNA binding site [nucleotide binding] 579405013268 two-component sensor protein; Provisional; Region: cpxA; PRK09470 579405013269 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 579405013270 dimerization interface [polypeptide binding]; other site 579405013271 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 579405013272 dimer interface [polypeptide binding]; other site 579405013273 phosphorylation site [posttranslational modification] 579405013274 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 579405013275 ATP binding site [chemical binding]; other site 579405013276 Mg2+ binding site [ion binding]; other site 579405013277 G-X-G motif; other site 579405013278 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 579405013279 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 579405013280 Predicted permeases [General function prediction only]; Region: COG0679 579405013281 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 579405013282 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 579405013283 putative active site [active] 579405013284 catalytic site [active] 579405013285 putative metal binding site [ion binding]; other site 579405013286 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 579405013287 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 579405013288 Walker A/P-loop; other site 579405013289 ATP binding site [chemical binding]; other site 579405013290 Q-loop/lid; other site 579405013291 ABC transporter signature motif; other site 579405013292 Walker B; other site 579405013293 D-loop; other site 579405013294 H-loop/switch region; other site 579405013295 TOBE domain; Region: TOBE_2; pfam08402 579405013296 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 579405013297 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 579405013298 dimer interface [polypeptide binding]; other site 579405013299 conserved gate region; other site 579405013300 putative PBP binding loops; other site 579405013301 ABC-ATPase subunit interface; other site 579405013302 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 579405013303 dimer interface [polypeptide binding]; other site 579405013304 conserved gate region; other site 579405013305 putative PBP binding loops; other site 579405013306 ABC-ATPase subunit interface; other site 579405013307 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 579405013308 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 579405013309 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 579405013310 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405013311 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405013312 dimer interface [polypeptide binding]; other site 579405013313 putative CheW interface [polypeptide binding]; other site 579405013314 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 579405013315 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 579405013316 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405013317 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405013318 dimer interface [polypeptide binding]; other site 579405013319 putative CheW interface [polypeptide binding]; other site 579405013320 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 579405013321 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405013322 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405013323 dimer interface [polypeptide binding]; other site 579405013324 putative CheW interface [polypeptide binding]; other site 579405013325 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 579405013326 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405013327 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405013328 dimer interface [polypeptide binding]; other site 579405013329 putative CheW interface [polypeptide binding]; other site 579405013330 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 579405013331 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405013332 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405013333 dimer interface [polypeptide binding]; other site 579405013334 putative CheW interface [polypeptide binding]; other site 579405013335 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 579405013336 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 579405013337 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405013338 homodimer interface [polypeptide binding]; other site 579405013339 catalytic residue [active] 579405013340 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 579405013341 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 579405013342 Walker A/P-loop; other site 579405013343 ATP binding site [chemical binding]; other site 579405013344 Q-loop/lid; other site 579405013345 ABC transporter signature motif; other site 579405013346 Walker B; other site 579405013347 D-loop; other site 579405013348 H-loop/switch region; other site 579405013349 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 579405013350 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 579405013351 Walker A/P-loop; other site 579405013352 ATP binding site [chemical binding]; other site 579405013353 Q-loop/lid; other site 579405013354 ABC transporter signature motif; other site 579405013355 Walker B; other site 579405013356 D-loop; other site 579405013357 H-loop/switch region; other site 579405013358 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 579405013359 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 579405013360 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 579405013361 TM-ABC transporter signature motif; other site 579405013362 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 579405013363 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 579405013364 TM-ABC transporter signature motif; other site 579405013365 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 579405013366 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 579405013367 dimerization interface [polypeptide binding]; other site 579405013368 ligand binding site [chemical binding]; other site 579405013369 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 579405013370 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 579405013371 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 579405013372 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 579405013373 DNA binding residues [nucleotide binding] 579405013374 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 579405013375 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 579405013376 cell division protein FtsE; Provisional; Region: PRK10908 579405013377 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 579405013378 Walker A/P-loop; other site 579405013379 ATP binding site [chemical binding]; other site 579405013380 Q-loop/lid; other site 579405013381 ABC transporter signature motif; other site 579405013382 Walker B; other site 579405013383 D-loop; other site 579405013384 H-loop/switch region; other site 579405013385 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 579405013386 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 579405013387 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 579405013388 P loop; other site 579405013389 GTP binding site [chemical binding]; other site 579405013390 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 579405013391 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 579405013392 S-adenosylmethionine binding site [chemical binding]; other site 579405013393 hypothetical protein; Provisional; Region: PRK10910 579405013394 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 579405013395 Predicted membrane protein [Function unknown]; Region: COG3714 579405013396 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 579405013397 CPxP motif; other site 579405013398 hypothetical protein; Provisional; Region: PRK11212 579405013399 hypothetical protein; Provisional; Region: PRK11615 579405013400 major facilitator superfamily transporter; Provisional; Region: PRK05122 579405013401 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 579405013402 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 579405013403 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 579405013404 substrate binding site [chemical binding]; other site 579405013405 ATP binding site [chemical binding]; other site 579405013406 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 579405013407 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 579405013408 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 579405013409 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 579405013410 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; pfam01270 579405013411 Cellulose synthase subunit D; Region: Cellsynth_D; pfam03500 579405013412 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 579405013413 TPR motif; other site 579405013414 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 579405013415 cellulose synthase regulator protein; Provisional; Region: PRK11114 579405013416 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 579405013417 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 579405013418 DXD motif; other site 579405013419 PilZ domain; Region: PilZ; pfam07238 579405013420 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 579405013421 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 579405013422 P-loop; other site 579405013423 Magnesium ion binding site [ion binding]; other site 579405013424 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 579405013425 EamA-like transporter family; Region: EamA; pfam00892 579405013426 HTH domain; Region: HTH_11; pfam08279 579405013427 Predicted transcriptional regulator [Transcription]; Region: COG2378 579405013428 WYL domain; Region: WYL; pfam13280 579405013429 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 579405013430 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_11; cd07261 579405013431 putative dimer interface [polypeptide binding]; other site 579405013432 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 579405013433 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 579405013434 DNA-binding site [nucleotide binding]; DNA binding site 579405013435 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 579405013436 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405013437 homodimer interface [polypeptide binding]; other site 579405013438 catalytic residue [active] 579405013439 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 579405013440 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405013441 Walker A/P-loop; other site 579405013442 ATP binding site [chemical binding]; other site 579405013443 Q-loop/lid; other site 579405013444 ABC transporter signature motif; other site 579405013445 Walker B; other site 579405013446 D-loop; other site 579405013447 H-loop/switch region; other site 579405013448 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 579405013449 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 579405013450 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 579405013451 Walker A/P-loop; other site 579405013452 ATP binding site [chemical binding]; other site 579405013453 Q-loop/lid; other site 579405013454 ABC transporter signature motif; other site 579405013455 Walker B; other site 579405013456 D-loop; other site 579405013457 H-loop/switch region; other site 579405013458 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 579405013459 dipeptide transporter; Provisional; Region: PRK10913 579405013460 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 579405013461 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 579405013462 dimer interface [polypeptide binding]; other site 579405013463 conserved gate region; other site 579405013464 putative PBP binding loops; other site 579405013465 ABC-ATPase subunit interface; other site 579405013466 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 579405013467 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 579405013468 dimer interface [polypeptide binding]; other site 579405013469 conserved gate region; other site 579405013470 putative PBP binding loops; other site 579405013471 ABC-ATPase subunit interface; other site 579405013472 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 579405013473 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 579405013474 peptide binding site [polypeptide binding]; other site 579405013475 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 579405013476 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 579405013477 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 579405013478 active site 579405013479 phosphorylation site [posttranslational modification] 579405013480 intermolecular recognition site; other site 579405013481 dimerization interface [polypeptide binding]; other site 579405013482 sensory histidine kinase DcuS; Provisional; Region: PRK11086 579405013483 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 579405013484 ATP binding site [chemical binding]; other site 579405013485 Mg2+ binding site [ion binding]; other site 579405013486 G-X-G motif; other site 579405013487 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 579405013488 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 579405013489 transmembrane helices; other site 579405013490 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 579405013491 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 579405013492 putative dimer interface [polypeptide binding]; other site 579405013493 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 579405013494 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 579405013495 putative dimer interface [polypeptide binding]; other site 579405013496 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 579405013497 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 579405013498 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 579405013499 DNA binding site [nucleotide binding] 579405013500 domain linker motif; other site 579405013501 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 579405013502 dimerization interface [polypeptide binding]; other site 579405013503 ligand binding site [chemical binding]; other site 579405013504 shikimate transporter; Provisional; Region: PRK09952 579405013505 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 579405013506 putative substrate translocation pore; other site 579405013507 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 579405013508 BNR repeat-like domain; Region: BNR_2; pfam13088 579405013509 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 579405013510 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 579405013511 inhibitor site; inhibition site 579405013512 active site 579405013513 dimer interface [polypeptide binding]; other site 579405013514 catalytic residue [active] 579405013515 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 579405013516 hexamer (dimer of trimers) interface [polypeptide binding]; other site 579405013517 substrate binding site [chemical binding]; other site 579405013518 trimer interface [polypeptide binding]; other site 579405013519 Mn binding site [ion binding]; other site 579405013520 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 579405013521 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 579405013522 N- and C-terminal domain interface [polypeptide binding]; other site 579405013523 active site 579405013524 MgATP binding site [chemical binding]; other site 579405013525 catalytic site [active] 579405013526 metal binding site [ion binding]; metal-binding site 579405013527 carbohydrate binding site [chemical binding]; other site 579405013528 putative homodimer interface [polypeptide binding]; other site 579405013529 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 579405013530 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 579405013531 sugar phosphate phosphatase; Provisional; Region: PRK10513 579405013532 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 579405013533 active site 579405013534 motif I; other site 579405013535 motif II; other site 579405013536 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 579405013537 Cache domain; Region: Cache_1; pfam02743 579405013538 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 579405013539 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 579405013540 dimer interface [polypeptide binding]; other site 579405013541 putative CheW interface [polypeptide binding]; other site 579405013542 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 579405013543 Ligand Binding Site [chemical binding]; other site 579405013544 universal stress protein UspB; Provisional; Region: PRK04960 579405013545 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 579405013546 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 579405013547 Predicted flavoproteins [General function prediction only]; Region: COG2081 579405013548 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 579405013549 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 579405013550 putative active site [active] 579405013551 heme pocket [chemical binding]; other site 579405013552 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 579405013553 putative active site [active] 579405013554 heme pocket [chemical binding]; other site 579405013555 GAF domain; Region: GAF; pfam01590 579405013556 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 579405013557 metal binding site [ion binding]; metal-binding site 579405013558 active site 579405013559 I-site; other site 579405013560 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 579405013561 D-serine dehydratase; Provisional; Region: PRK02991 579405013562 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 579405013563 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 579405013564 catalytic residue [active] 579405013565 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 579405013566 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405013567 Coenzyme A binding pocket [chemical binding]; other site 579405013568 Double zinc ribbon; Region: DZR; pfam12773 579405013569 Sodium Bile acid symporter family; Region: SBF; cl17470 579405013570 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 579405013571 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 579405013572 catalytic core [active] 579405013573 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 579405013574 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 579405013575 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 579405013576 putative substrate translocation pore; other site 579405013577 Transcriptional regulator [Transcription]; Region: LysR; COG0583 579405013578 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 579405013579 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 579405013580 putative effector binding pocket; other site 579405013581 dimerization interface [polypeptide binding]; other site 579405013582 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 579405013583 putative substrate translocation pore; other site 579405013584 Major Facilitator Superfamily; Region: MFS_1; pfam07690 579405013585 Thermostable hemolysin; Region: T_hemolysin; pfam12261 579405013586 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 579405013587 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 579405013588 acyl-activating enzyme (AAE) consensus motif; other site 579405013589 putative AMP binding site [chemical binding]; other site 579405013590 putative active site [active] 579405013591 putative CoA binding site [chemical binding]; other site 579405013592 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 579405013593 heme binding pocket [chemical binding]; other site 579405013594 heme ligand [chemical binding]; other site 579405013595 short chain dehydrogenase; Provisional; Region: PRK09072 579405013596 classical (c) SDRs; Region: SDR_c; cd05233 579405013597 NAD(P) binding site [chemical binding]; other site 579405013598 active site 579405013599 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 579405013600 TPR motif; other site 579405013601 binding surface 579405013602 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 579405013603 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; cl03295 579405013604 nucleotide binding pocket [chemical binding]; other site 579405013605 K-X-D-G motif; other site 579405013606 catalytic site [active] 579405013607 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 579405013608 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 579405013609 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 579405013610 catalytic site [active] 579405013611 G-X2-G-X-G-K; other site 579405013612 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 579405013613 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 579405013614 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 579405013615 Zn2+ binding site [ion binding]; other site 579405013616 Mg2+ binding site [ion binding]; other site 579405013617 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 579405013618 synthetase active site [active] 579405013619 NTP binding site [chemical binding]; other site 579405013620 metal binding site [ion binding]; metal-binding site 579405013621 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 579405013622 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 579405013623 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 579405013624 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 579405013625 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 579405013626 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 579405013627 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 579405013628 generic binding surface II; other site 579405013629 ssDNA binding site; other site 579405013630 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 579405013631 ATP binding site [chemical binding]; other site 579405013632 putative Mg++ binding site [ion binding]; other site 579405013633 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 579405013634 nucleotide binding region [chemical binding]; other site 579405013635 ATP-binding site [chemical binding]; other site 579405013636 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 579405013637 AsmA family; Region: AsmA; pfam05170 579405013638 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 579405013639 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405013640 Coenzyme A binding pocket [chemical binding]; other site 579405013641 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 579405013642 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 579405013643 putative active site [active] 579405013644 dimerization interface [polypeptide binding]; other site 579405013645 putative tRNAtyr binding site [nucleotide binding]; other site 579405013646 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 579405013647 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 579405013648 motif II; other site 579405013649 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 579405013650 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 579405013651 G1 box; other site 579405013652 putative GEF interaction site [polypeptide binding]; other site 579405013653 GTP/Mg2+ binding site [chemical binding]; other site 579405013654 Switch I region; other site 579405013655 G2 box; other site 579405013656 G3 box; other site 579405013657 Switch II region; other site 579405013658 G4 box; other site 579405013659 G5 box; other site 579405013660 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 579405013661 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 579405013662 glutamine synthetase; Provisional; Region: glnA; PRK09469 579405013663 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 579405013664 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 579405013665 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 579405013666 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 579405013667 dimer interface [polypeptide binding]; other site 579405013668 phosphorylation site [posttranslational modification] 579405013669 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 579405013670 ATP binding site [chemical binding]; other site 579405013671 Mg2+ binding site [ion binding]; other site 579405013672 G-X-G motif; other site 579405013673 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 579405013674 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 579405013675 active site 579405013676 phosphorylation site [posttranslational modification] 579405013677 intermolecular recognition site; other site 579405013678 dimerization interface [polypeptide binding]; other site 579405013679 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 579405013680 Walker A motif; other site 579405013681 ATP binding site [chemical binding]; other site 579405013682 Walker B motif; other site 579405013683 arginine finger; other site 579405013684 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 579405013685 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 579405013686 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 579405013687 FeS/SAM binding site; other site 579405013688 HemN C-terminal domain; Region: HemN_C; pfam06969 579405013689 Der GTPase activator; Provisional; Region: PRK05244 579405013690 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 579405013691 G1 box; other site 579405013692 GTP/Mg2+ binding site [chemical binding]; other site 579405013693 Switch I region; other site 579405013694 G2 box; other site 579405013695 G3 box; other site 579405013696 Switch II region; other site 579405013697 G4 box; other site 579405013698 G5 box; other site 579405013699 DNA polymerase I; Provisional; Region: PRK05755 579405013700 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 579405013701 active site 579405013702 metal binding site 1 [ion binding]; metal-binding site 579405013703 putative 5' ssDNA interaction site; other site 579405013704 metal binding site 3; metal-binding site 579405013705 metal binding site 2 [ion binding]; metal-binding site 579405013706 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 579405013707 putative DNA binding site [nucleotide binding]; other site 579405013708 putative metal binding site [ion binding]; other site 579405013709 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 579405013710 active site 579405013711 catalytic site [active] 579405013712 substrate binding site [chemical binding]; other site 579405013713 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 579405013714 active site 579405013715 DNA binding site [nucleotide binding] 579405013716 catalytic site [active] 579405013717 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 579405013718 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 579405013719 catalytic residues [active] 579405013720 hinge region; other site 579405013721 alpha helical domain; other site 579405013722 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 579405013723 serine/threonine protein kinase; Provisional; Region: PRK11768 579405013724 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 579405013725 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 579405013726 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 579405013727 GTP binding site; other site 579405013728 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 579405013729 Walker A motif; other site 579405013730 transcriptional repressor RbsR; Provisional; Region: PRK10423 579405013731 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 579405013732 DNA binding site [nucleotide binding] 579405013733 domain linker motif; other site 579405013734 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 579405013735 dimerization interface [polypeptide binding]; other site 579405013736 ligand binding site [chemical binding]; other site 579405013737 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 579405013738 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 579405013739 substrate binding site [chemical binding]; other site 579405013740 dimer interface [polypeptide binding]; other site 579405013741 ATP binding site [chemical binding]; other site 579405013742 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 579405013743 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 579405013744 ligand binding site [chemical binding]; other site 579405013745 dimerization interface [polypeptide binding]; other site 579405013746 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 579405013747 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 579405013748 TM-ABC transporter signature motif; other site 579405013749 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 579405013750 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 579405013751 Walker A/P-loop; other site 579405013752 ATP binding site [chemical binding]; other site 579405013753 Q-loop/lid; other site 579405013754 ABC transporter signature motif; other site 579405013755 Walker B; other site 579405013756 D-loop; other site 579405013757 H-loop/switch region; other site 579405013758 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 579405013759 D-ribose pyranase; Provisional; Region: PRK11797 579405013760 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 579405013761 potassium uptake protein; Region: kup; TIGR00794 579405013762 regulatory ATPase RavA; Provisional; Region: PRK13531 579405013763 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 579405013764 Walker A motif; other site 579405013765 ATP binding site [chemical binding]; other site 579405013766 Walker B motif; other site 579405013767 arginine finger; other site 579405013768 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 579405013769 hypothetical protein; Provisional; Region: yieM; PRK10997 579405013770 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 579405013771 metal ion-dependent adhesion site (MIDAS); other site 579405013772 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 579405013773 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 579405013774 putative DNA binding site [nucleotide binding]; other site 579405013775 putative Zn2+ binding site [ion binding]; other site 579405013776 AsnC family; Region: AsnC_trans_reg; pfam01037 579405013777 FMN-binding protein MioC; Provisional; Region: PRK09004 579405013778 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 579405013779 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 579405013780 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 579405013781 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 579405013782 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 579405013783 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 579405013784 F0F1 ATP synthase subunit I; Validated; Region: PRK08049 579405013785 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 579405013786 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 579405013787 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 579405013788 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 579405013789 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 579405013790 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 579405013791 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 579405013792 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 579405013793 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 579405013794 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 579405013795 beta subunit interaction interface [polypeptide binding]; other site 579405013796 Walker A motif; other site 579405013797 ATP binding site [chemical binding]; other site 579405013798 Walker B motif; other site 579405013799 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 579405013800 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 579405013801 core domain interface [polypeptide binding]; other site 579405013802 delta subunit interface [polypeptide binding]; other site 579405013803 epsilon subunit interface [polypeptide binding]; other site 579405013804 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 579405013805 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 579405013806 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 579405013807 alpha subunit interaction interface [polypeptide binding]; other site 579405013808 Walker A motif; other site 579405013809 ATP binding site [chemical binding]; other site 579405013810 Walker B motif; other site 579405013811 inhibitor binding site; inhibition site 579405013812 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 579405013813 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 579405013814 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 579405013815 gamma subunit interface [polypeptide binding]; other site 579405013816 epsilon subunit interface [polypeptide binding]; other site 579405013817 LBP interface [polypeptide binding]; other site 579405013818 Right handed beta helix region; Region: Beta_helix; pfam13229 579405013819 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 579405013820 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 579405013821 Substrate binding site; other site 579405013822 Mg++ binding site; other site 579405013823 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 579405013824 active site 579405013825 substrate binding site [chemical binding]; other site 579405013826 CoA binding site [chemical binding]; other site 579405013827 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 579405013828 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 579405013829 glutaminase active site [active] 579405013830 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 579405013831 dimer interface [polypeptide binding]; other site 579405013832 active site 579405013833 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 579405013834 dimer interface [polypeptide binding]; other site 579405013835 active site 579405013836 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 579405013837 substrate binding pocket [chemical binding]; other site 579405013838 membrane-bound complex binding site; other site 579405013839 hinge residues; other site 579405013840 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 579405013841 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 579405013842 dimer interface [polypeptide binding]; other site 579405013843 conserved gate region; other site 579405013844 putative PBP binding loops; other site 579405013845 ABC-ATPase subunit interface; other site 579405013846 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 579405013847 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 579405013848 dimer interface [polypeptide binding]; other site 579405013849 conserved gate region; other site 579405013850 putative PBP binding loops; other site 579405013851 ABC-ATPase subunit interface; other site 579405013852 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 579405013853 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 579405013854 Walker A/P-loop; other site 579405013855 ATP binding site [chemical binding]; other site 579405013856 Q-loop/lid; other site 579405013857 ABC transporter signature motif; other site 579405013858 Walker B; other site 579405013859 D-loop; other site 579405013860 H-loop/switch region; other site 579405013861 transcriptional regulator PhoU; Provisional; Region: PRK11115 579405013862 PhoU domain; Region: PhoU; pfam01895 579405013863 PhoU domain; Region: PhoU; pfam01895 579405013864 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 579405013865 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 579405013866 substrate binding pocket [chemical binding]; other site 579405013867 membrane-bound complex binding site; other site 579405013868 hinge residues; other site 579405013869 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 579405013870 dimer interface [polypeptide binding]; other site 579405013871 conserved gate region; other site 579405013872 putative PBP binding loops; other site 579405013873 ABC-ATPase subunit interface; other site 579405013874 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 579405013875 dimer interface [polypeptide binding]; other site 579405013876 conserved gate region; other site 579405013877 putative PBP binding loops; other site 579405013878 ABC-ATPase subunit interface; other site 579405013879 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 579405013880 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 579405013881 motif II; other site 579405013882 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 579405013883 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 579405013884 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 579405013885 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 579405013886 4Fe-4S binding domain; Region: Fer4; pfam00037 579405013887 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 579405013888 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 579405013889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 579405013890 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 579405013891 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 579405013892 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 579405013893 inhibitor-cofactor binding pocket; inhibition site 579405013894 pyridoxal 5'-phosphate binding site [chemical binding]; other site 579405013895 catalytic residue [active] 579405013896 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 579405013897 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 579405013898 Ligand binding site; other site 579405013899 Putative Catalytic site; other site 579405013900 DXD motif; other site 579405013901 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 579405013902 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 579405013903 active site 579405013904 substrate binding site [chemical binding]; other site 579405013905 cosubstrate binding site; other site 579405013906 catalytic site [active] 579405013907 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 579405013908 active site 579405013909 hexamer interface [polypeptide binding]; other site 579405013910 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 579405013911 NAD binding site [chemical binding]; other site 579405013912 substrate binding site [chemical binding]; other site 579405013913 active site 579405013914 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 579405013915 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 579405013916 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 579405013917 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 579405013918 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 579405013919 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 579405013920 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 579405013921 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 579405013922 Coenzyme A binding pocket [chemical binding]; other site 579405013923 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 579405013924 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 579405013925 dimer interface [polypeptide binding]; other site 579405013926 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 579405013927 active site 579405013928 Fe binding site [ion binding]; other site 579405013929 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 579405013930 HlyD family secretion protein; Region: HlyD; pfam00529 579405013931 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 579405013932 HlyD family secretion protein; Region: HlyD_3; pfam13437 579405013933 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 579405013934 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 579405013935 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 579405013936 FtsX-like permease family; Region: FtsX; pfam02687 579405013937 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 579405013938 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 579405013939 Walker A/P-loop; other site 579405013940 ATP binding site [chemical binding]; other site 579405013941 Q-loop/lid; other site 579405013942 ABC transporter signature motif; other site 579405013943 Walker B; other site 579405013944 D-loop; other site 579405013945 H-loop/switch region; other site 579405013946 HipA N-terminal domain; Region: Couple_hipA; pfam13657 579405013947 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 579405013948 non-specific DNA binding site [nucleotide binding]; other site 579405013949 salt bridge; other site 579405013950 sequence-specific DNA binding site [nucleotide binding]; other site 579405013951 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 579405013952 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 579405013953 trmE is a tRNA modification GTPase; Region: trmE; cd04164 579405013954 G1 box; other site 579405013955 GTP/Mg2+ binding site [chemical binding]; other site 579405013956 Switch I region; other site 579405013957 G2 box; other site 579405013958 Switch II region; other site 579405013959 G3 box; other site 579405013960 G4 box; other site 579405013961 G5 box; other site 579405013962 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 579405013963 membrane protein insertase; Provisional; Region: PRK01318 579405013964 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 579405013965 hypothetical protein; Validated; Region: PRK00041 579405013966 ribonuclease P; Reviewed; Region: rnpA; PRK01732 579405013967 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399