-- dump date 20140619_043228 -- class Genbank::misc_feature -- table misc_feature_note -- id note 498213000001 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 498213000002 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 498213000003 dimer interface [polypeptide binding]; other site 498213000004 ssDNA binding site [nucleotide binding]; other site 498213000005 tetramer (dimer of dimers) interface [polypeptide binding]; other site 498213000006 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 498213000007 Probable transposase; Region: OrfB_IS605; pfam01385 498213000008 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 498213000009 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 498213000010 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 498213000011 NlpC/P60 family; Region: NLPC_P60; pfam00877 498213000012 LemA family; Region: LemA; cl00742 498213000013 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498213000014 Zn2+ binding site [ion binding]; other site 498213000015 Mg2+ binding site [ion binding]; other site 498213000016 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 498213000017 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 498213000018 Walker A motif; other site 498213000019 ATP binding site [chemical binding]; other site 498213000020 Walker B motif; other site 498213000021 arginine finger; other site 498213000022 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 498213000023 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 498213000024 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 498213000025 Protein of unknown function (DUF3832); Region: DUF3832; pfam12909 498213000026 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 498213000027 binding surface 498213000028 TPR motif; other site 498213000029 Tetratricopeptide repeat; Region: TPR_12; pfam13424 498213000030 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498213000031 Zn2+ binding site [ion binding]; other site 498213000032 Mg2+ binding site [ion binding]; other site 498213000033 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 498213000034 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 498213000035 active site 498213000036 Methyltransferase domain; Region: Methyltransf_26; pfam13659 498213000037 CHC2 zinc finger; Region: zf-CHC2; cl17510 498213000038 Domain of unknown function (DUF3854); Region: DUF3854; pfam12965 498213000039 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 498213000040 non-specific DNA binding site [nucleotide binding]; other site 498213000041 salt bridge; other site 498213000042 sequence-specific DNA binding site [nucleotide binding]; other site 498213000043 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 498213000044 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 498213000045 cofactor binding site; other site 498213000046 DNA binding site [nucleotide binding] 498213000047 substrate interaction site [chemical binding]; other site 498213000048 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 498213000049 DNA methylase; Region: N6_N4_Mtase; pfam01555 498213000050 Methyltransferase domain; Region: Methyltransf_25; pfam13649 498213000051 Clostridial neurotoxin zinc protease; Region: Peptidase_M27; pfam01742 498213000052 Clostridium neurotoxin, Translocation domain; Region: Toxin_trans; pfam07952 498213000053 Clostridium neurotoxin, N-terminal receptor binding; Region: Toxin_R_bind_N; pfam07953 498213000054 Clostridium neurotoxin, C-terminal receptor binding; Region: Toxin_R_bind_C; pfam07951 498213000055 Clostridial neurotoxin zinc protease; Region: Peptidase_M27; pfam01742 498213000056 Clostridium neurotoxin, Translocation domain; Region: Toxin_trans; pfam07952 498213000057 Clostridium neurotoxin, N-terminal receptor binding; Region: Toxin_R_bind_N; pfam07953 498213000058 Nontoxic nonhaemagglutinin C-terminal; Region: NTNH_C; pfam08470 498213000059 clostridium toxin-associated regulator BotR; Region: P21_Cbot; TIGR03209 498213000060 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 498213000061 DNA binding residues [nucleotide binding] 498213000062 Ricin-type beta-trefoil; Region: RICIN; smart00458 498213000063 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 498213000064 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 498213000065 Ricin-type beta-trefoil; Region: RICIN; smart00458 498213000066 putative sugar binding sites [chemical binding]; other site 498213000067 Q-X-W motif; other site 498213000068 Clostridium botulinum HA-17 protein; Region: Botulinum_HA-17; pfam05588 498213000069 Clostridium enterotoxin; Region: Clenterotox; pfam03505 498213000070 Clostridium enterotoxin; Region: Clenterotox; pfam03505 498213000071 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 498213000072 Stage III sporulation protein D; Region: SpoIIID; pfam12116 498213000073 Tubulin C-terminal domain; Region: Tubulin_C; cl10021 498213000074 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 498213000075 Mg binding site [ion binding]; other site 498213000076 nucleotide binding site [chemical binding]; other site 498213000077 putative protofilament interface [polypeptide binding]; other site 498213000078 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 498213000079 Bax inhibitor 1 like; Region: BaxI_1; cl17691 498213000080 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 498213000081 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 498213000082 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 498213000083 active site 498213000084 metal binding site [ion binding]; metal-binding site 498213000085 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 498213000086 Fic/DOC family; Region: Fic; cl00960 498213000087 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 498213000088 Part of AAA domain; Region: AAA_19; pfam13245 498213000089 Family description; Region: UvrD_C_2; pfam13538 498213000090 Staphylococcal nuclease homologues; Region: SNc; smart00318 498213000091 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 498213000092 Catalytic site; other site 498213000093 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 498213000094 sequence-specific DNA binding site [nucleotide binding]; other site 498213000095 salt bridge; other site 498213000096 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 498213000097 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 498213000098 Probable transposase; Region: OrfB_IS605; pfam01385 498213000099 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 498213000100 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 498213000101 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 498213000102 dimer interface [polypeptide binding]; other site 498213000103 ssDNA binding site [nucleotide binding]; other site 498213000104 tetramer (dimer of dimers) interface [polypeptide binding]; other site 498213000105 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; cl17512 498213000106 DNA polymerase III subunit beta; Validated; Region: PRK05643 498213000107 putative DNA binding surface [nucleotide binding]; other site 498213000108 dimer interface [polypeptide binding]; other site 498213000109 beta-clamp/clamp loader binding surface; other site 498213000110 beta-clamp/translesion DNA polymerase binding surface; other site 498213000111 Probable transposase; Region: OrfB_IS605; pfam01385 498213000112 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 498213000113 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 498213000114 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 498213000115 Methyltransferase domain; Region: Methyltransf_26; pfam13659 498213000116 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 498213000117 AAA-like domain; Region: AAA_10; pfam12846 498213000118 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 498213000119 Replication-relaxation; Region: Replic_Relax; pfam13814 498213000120 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 498213000121 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 498213000122 Active Sites [active] 498213000123 PspC domain; Region: PspC; cl00864 498213000124 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 498213000125 S-adenosylmethionine binding site [chemical binding]; other site 498213000126 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 498213000127 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 498213000128 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 498213000129 cofactor binding site; other site 498213000130 DNA binding site [nucleotide binding] 498213000131 substrate interaction site [chemical binding]; other site 498213000132 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 498213000133 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 498213000134 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 498213000135 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 498213000136 CRISPR-associated protein Cas5, subtype I-B/HMARI; Region: cas_Cas5h; TIGR02592 498213000137 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 498213000138 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 498213000139 DnaA N-terminal domain; Region: DnaA_N; pfam11638 498213000140 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 498213000141 Walker A motif; other site 498213000142 ATP binding site [chemical binding]; other site 498213000143 Walker B motif; other site 498213000144 arginine finger; other site 498213000145 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 498213000146 DnaA box-binding interface [nucleotide binding]; other site 498213000147 DNA polymerase III subunit beta; Validated; Region: PRK05643 498213000148 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 498213000149 putative DNA binding surface [nucleotide binding]; other site 498213000150 dimer interface [polypeptide binding]; other site 498213000151 beta-clamp/clamp loader binding surface; other site 498213000152 beta-clamp/translesion DNA polymerase binding surface; other site 498213000153 S4 domain; Region: S4_2; pfam13275 498213000154 recombination protein F; Reviewed; Region: recF; PRK00064 498213000155 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 498213000156 Walker A/P-loop; other site 498213000157 ATP binding site [chemical binding]; other site 498213000158 Q-loop/lid; other site 498213000159 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213000160 ABC transporter signature motif; other site 498213000161 Walker B; other site 498213000162 D-loop; other site 498213000163 H-loop/switch region; other site 498213000164 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 498213000165 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 498213000166 Mg2+ binding site [ion binding]; other site 498213000167 G-X-G motif; other site 498213000168 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 498213000169 anchoring element; other site 498213000170 dimer interface [polypeptide binding]; other site 498213000171 ATP binding site [chemical binding]; other site 498213000172 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 498213000173 active site 498213000174 putative metal-binding site [ion binding]; other site 498213000175 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 498213000176 DNA gyrase subunit A; Validated; Region: PRK05560 498213000177 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 498213000178 CAP-like domain; other site 498213000179 active site 498213000180 primary dimer interface [polypeptide binding]; other site 498213000181 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 498213000182 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 498213000183 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 498213000184 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 498213000185 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 498213000186 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 498213000187 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 498213000188 HTH domain; Region: HTH_11; pfam08279 498213000189 3H domain; Region: 3H; pfam02829 498213000190 Uncharacterized conserved protein [Function unknown]; Region: COG2006 498213000191 Domain of unknown function (DUF362); Region: DUF362; pfam04015 498213000192 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 498213000193 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 498213000194 hypothetical protein; Validated; Region: PRK00068 498213000195 Uncharacterized conserved protein [Function unknown]; Region: COG1615 498213000196 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 498213000197 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 498213000198 Predicted dehydrogenase [General function prediction only]; Region: COG0579 498213000199 hydroxyglutarate oxidase; Provisional; Region: PRK11728 498213000200 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 498213000201 Protein of unknown function (DUF1667); Region: DUF1667; pfam07892 498213000202 seryl-tRNA synthetase; Provisional; Region: PRK05431 498213000203 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 498213000204 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 498213000205 dimer interface [polypeptide binding]; other site 498213000206 active site 498213000207 motif 1; other site 498213000208 motif 2; other site 498213000209 motif 3; other site 498213000210 phosphatidylserine decarboxylase; Provisional; Region: PRK00723 498213000211 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 498213000212 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213000213 Walker A/P-loop; other site 498213000214 ATP binding site [chemical binding]; other site 498213000215 Q-loop/lid; other site 498213000216 ABC transporter signature motif; other site 498213000217 Walker B; other site 498213000218 D-loop; other site 498213000219 H-loop/switch region; other site 498213000220 phosphatidylserine decarboxylase; Provisional; Region: PRK00723 498213000221 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 498213000222 ABC1 family; Region: ABC1; cl17513 498213000223 Uncharacterized conserved protein [Function unknown]; Region: COG3937 498213000224 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 498213000225 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 498213000226 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 498213000227 Walker A motif; other site 498213000228 ATP binding site [chemical binding]; other site 498213000229 Walker B motif; other site 498213000230 arginine finger; other site 498213000231 methionine gamma-lyase; Provisional; Region: PRK06234 498213000232 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 498213000233 homodimer interface [polypeptide binding]; other site 498213000234 substrate-cofactor binding pocket; other site 498213000235 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213000236 catalytic residue [active] 498213000237 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 498213000238 nucleoside/Zn binding site; other site 498213000239 dimer interface [polypeptide binding]; other site 498213000240 catalytic motif [active] 498213000241 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 498213000242 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 498213000243 Walker A motif; other site 498213000244 ATP binding site [chemical binding]; other site 498213000245 Walker B motif; other site 498213000246 arginine finger; other site 498213000247 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 498213000248 hypothetical protein; Validated; Region: PRK00153 498213000249 recombination protein RecR; Reviewed; Region: recR; PRK00076 498213000250 RecR protein; Region: RecR; pfam02132 498213000251 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 498213000252 putative active site [active] 498213000253 putative metal-binding site [ion binding]; other site 498213000254 tetramer interface [polypeptide binding]; other site 498213000255 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 498213000256 pro-sigmaK processing inhibitor BofA; Region: spore_BofA; TIGR02862 498213000257 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 498213000258 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 498213000259 putative NADH binding site [chemical binding]; other site 498213000260 putative active site [active] 498213000261 nudix motif; other site 498213000262 putative metal binding site [ion binding]; other site 498213000263 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 498213000264 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 498213000265 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 498213000266 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 498213000267 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 498213000268 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 498213000269 putative ATP binding site [chemical binding]; other site 498213000270 putative substrate interface [chemical binding]; other site 498213000271 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 498213000272 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 498213000273 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 498213000274 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 498213000275 active site 498213000276 Fe-S cluster binding site [ion binding]; other site 498213000277 RNA polymerase factor sigma-70; Validated; Region: PRK06811 498213000278 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498213000279 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 498213000280 DNA binding residues [nucleotide binding] 498213000281 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 498213000282 DltD C-terminal region; Region: DltD_C; pfam04914 498213000283 SurA N-terminal domain; Region: SurA_N_3; cl07813 498213000284 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 498213000285 NAD-dependent deacetylase; Provisional; Region: PRK00481 498213000286 SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2-fam; cd01407 498213000287 NAD+ binding site [chemical binding]; other site 498213000288 substrate binding site [chemical binding]; other site 498213000289 Zn binding site [ion binding]; other site 498213000290 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 498213000291 dimer interface [polypeptide binding]; other site 498213000292 catalytic triad [active] 498213000293 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 498213000294 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 498213000295 Cl binding site [ion binding]; other site 498213000296 oligomer interface [polypeptide binding]; other site 498213000297 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 498213000298 amidohydrolase; Region: amidohydrolases; TIGR01891 498213000299 metal binding site [ion binding]; metal-binding site 498213000300 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 498213000301 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 498213000302 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 498213000303 homodimer interface [polypeptide binding]; other site 498213000304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213000305 catalytic residue [active] 498213000306 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 498213000307 thymidylate kinase; Provisional; Region: PRK13975; cl17243 498213000308 Protein of unknown function (DUF970); Region: DUF970; pfam06153 498213000309 DNA polymerase III subunit delta'; Validated; Region: PRK05564 498213000310 DNA polymerase III subunit delta'; Validated; Region: PRK08485 498213000311 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 498213000312 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 498213000313 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 498213000314 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 498213000315 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 498213000316 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 498213000317 S-adenosylmethionine binding site [chemical binding]; other site 498213000318 Predicted methyltransferases [General function prediction only]; Region: COG0313 498213000319 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 498213000320 putative SAM binding site [chemical binding]; other site 498213000321 putative homodimer interface [polypeptide binding]; other site 498213000322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 498213000323 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 498213000324 NlpC/P60 family; Region: NLPC_P60; pfam00877 498213000325 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 498213000326 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 498213000327 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 498213000328 arginine deiminase; Provisional; Region: PRK01388 498213000329 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 498213000330 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 498213000331 homotrimer interaction site [polypeptide binding]; other site 498213000332 zinc binding site [ion binding]; other site 498213000333 CDP-binding sites; other site 498213000334 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 498213000335 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 498213000336 putative active site [active] 498213000337 putative metal binding site [ion binding]; other site 498213000338 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 498213000339 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 498213000340 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 498213000341 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 498213000342 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 498213000343 Fe-S cluster binding site [ion binding]; other site 498213000344 active site 498213000345 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 498213000346 MarR family; Region: MarR_2; cl17246 498213000347 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 498213000348 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 498213000349 active site 498213000350 HIGH motif; other site 498213000351 KMSKS motif; other site 498213000352 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 498213000353 anticodon binding site; other site 498213000354 tRNA binding surface [nucleotide binding]; other site 498213000355 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 498213000356 dimer interface [polypeptide binding]; other site 498213000357 putative tRNA-binding site [nucleotide binding]; other site 498213000358 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 498213000359 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 498213000360 active site 498213000361 Domain of unknown function (DUF348); Region: DUF348; pfam03990 498213000362 Domain of unknown function (DUF348); Region: DUF348; pfam03990 498213000363 G5 domain; Region: G5; pfam07501 498213000364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 498213000365 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 498213000366 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 498213000367 putative active site [active] 498213000368 putative metal binding site [ion binding]; other site 498213000369 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 498213000370 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 498213000371 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 498213000372 S-adenosylmethionine binding site [chemical binding]; other site 498213000373 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 498213000374 HlyD family secretion protein; Region: HlyD_3; pfam13437 498213000375 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 498213000376 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 498213000377 Walker A/P-loop; other site 498213000378 ATP binding site [chemical binding]; other site 498213000379 Q-loop/lid; other site 498213000380 ABC transporter signature motif; other site 498213000381 Walker B; other site 498213000382 D-loop; other site 498213000383 H-loop/switch region; other site 498213000384 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 498213000385 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 498213000386 FtsX-like permease family; Region: FtsX; pfam02687 498213000387 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 498213000388 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 498213000389 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 498213000390 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 498213000391 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 498213000392 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 498213000393 metal binding site [ion binding]; metal-binding site 498213000394 active site 498213000395 I-site; other site 498213000396 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 498213000397 MgtC family; Region: MgtC; pfam02308 498213000398 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 498213000399 ATP cone domain; Region: ATP-cone; pfam03477 498213000400 Class III ribonucleotide reductase; Region: RNR_III; cd01675 498213000401 effector binding site; other site 498213000402 active site 498213000403 Zn binding site [ion binding]; other site 498213000404 glycine loop; other site 498213000405 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 498213000406 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 498213000407 Predicted transcriptional regulators [Transcription]; Region: COG1695 498213000408 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 498213000409 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 498213000410 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 498213000411 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 498213000412 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 498213000413 HIGH motif; other site 498213000414 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 498213000415 active site 498213000416 KMSKS motif; other site 498213000417 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 498213000418 tRNA binding surface [nucleotide binding]; other site 498213000419 anticodon binding site; other site 498213000420 Transcriptional regulators [Transcription]; Region: PurR; COG1609 498213000421 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 498213000422 DNA binding site [nucleotide binding] 498213000423 domain linker motif; other site 498213000424 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 498213000425 AAA domain; Region: AAA_11; pfam13086 498213000426 Part of AAA domain; Region: AAA_19; pfam13245 498213000427 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 498213000428 AAA domain; Region: AAA_12; pfam13087 498213000429 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 498213000430 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 498213000431 Substrate binding site; other site 498213000432 Cupin domain; Region: Cupin_2; cl17218 498213000433 hypothetical protein; Provisional; Region: PRK04194 498213000434 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 498213000435 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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_I; cd01990 498213000436 Ligand Binding Site [chemical binding]; other site 498213000437 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 498213000438 AIR carboxylase; Region: AIRC; smart01001 498213000439 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 498213000440 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 498213000441 FeS/SAM binding site; other site 498213000442 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 498213000443 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 498213000444 glycosyltransferase, GG-Bacteroidales peptide system; Region: glyco_rSAM_CFB; TIGR04157 498213000445 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 498213000446 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 498213000447 substrate binding site [chemical binding]; other site 498213000448 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 498213000449 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 498213000450 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 498213000451 substrate binding site [chemical binding]; other site 498213000452 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 498213000453 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 498213000454 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 498213000455 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 498213000456 active site 498213000457 ATP binding site [chemical binding]; other site 498213000458 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 498213000459 substrate binding site [chemical binding]; other site 498213000460 YabG peptidase U57; Region: Peptidase_U57; pfam05582 498213000461 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 498213000462 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 498213000463 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 498213000464 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 498213000465 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 498213000466 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 498213000467 proposed catalytic triad [active] 498213000468 active site nucleophile [active] 498213000469 cyanophycin synthetase; Provisional; Region: PRK14016 498213000470 ATP-grasp domain; Region: ATP-grasp_4; cl17255 498213000471 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 498213000472 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 498213000473 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 498213000474 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 498213000475 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 498213000476 Spore germination protein; Region: Spore_permease; cl17796 498213000477 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 498213000478 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 498213000479 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 498213000480 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 498213000481 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 498213000482 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 498213000483 germination protein YpeB; Region: spore_YpeB; TIGR02889 498213000484 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 498213000485 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 498213000486 Ligand Binding Site [chemical binding]; other site 498213000487 Domain of unknown function (DUF814); Region: DUF814; pfam05670 498213000488 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 498213000489 CTP synthetase; Validated; Region: pyrG; PRK05380 498213000490 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 498213000491 Catalytic site [active] 498213000492 active site 498213000493 UTP binding site [chemical binding]; other site 498213000494 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 498213000495 active site 498213000496 putative oxyanion hole; other site 498213000497 catalytic triad [active] 498213000498 transcription termination factor Rho; Provisional; Region: rho; PRK09376 498213000499 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 498213000500 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 498213000501 RNA binding site [nucleotide binding]; other site 498213000502 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 498213000503 Walker A motif; other site 498213000504 ATP binding site [chemical binding]; other site 498213000505 Walker B motif; other site 498213000506 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 498213000507 thymidine kinase; Provisional; Region: PRK04296 498213000508 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 498213000509 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 498213000510 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 498213000511 peptide chain release factor 1; Validated; Region: prfA; PRK00591 498213000512 This domain is found in peptide chain release factors; Region: PCRF; smart00937 498213000513 RF-1 domain; Region: RF-1; pfam00472 498213000514 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 498213000515 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 498213000516 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 498213000517 Low molecular weight phosphatase family; Region: LMWPc; cd00115 498213000518 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 498213000519 active site 498213000520 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 498213000521 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 498213000522 active site 498213000523 Deoxycytidylate deaminase [Nucleotide transport and metabolism]; Region: ComEB; COG2131 498213000524 active site 498213000525 Zn binding site [ion binding]; other site 498213000526 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 498213000527 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 498213000528 Mg++ binding site [ion binding]; other site 498213000529 putative catalytic motif [active] 498213000530 substrate binding site [chemical binding]; other site 498213000531 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 498213000532 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 498213000533 active site 498213000534 homodimer interface [polypeptide binding]; other site 498213000535 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 498213000536 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 498213000537 F0F1 ATP synthase subunit B; Provisional; Region: PRK13461 498213000538 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 498213000539 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 498213000540 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 498213000541 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 498213000542 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 498213000543 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 498213000544 beta subunit interaction interface [polypeptide binding]; other site 498213000545 Walker A motif; other site 498213000546 ATP binding site [chemical binding]; other site 498213000547 Walker B motif; other site 498213000548 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 498213000549 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 498213000550 core domain interface [polypeptide binding]; other site 498213000551 delta subunit interface [polypeptide binding]; other site 498213000552 epsilon subunit interface [polypeptide binding]; other site 498213000553 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 498213000554 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 498213000555 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 498213000556 alpha subunit interaction interface [polypeptide binding]; other site 498213000557 Walker A motif; other site 498213000558 ATP binding site [chemical binding]; other site 498213000559 Walker B motif; other site 498213000560 inhibitor binding site; inhibition site 498213000561 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 498213000562 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13450 498213000563 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 498213000564 gamma subunit interface [polypeptide binding]; other site 498213000565 epsilon subunit interface [polypeptide binding]; other site 498213000566 LBP interface [polypeptide binding]; other site 498213000567 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 498213000568 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 498213000569 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 498213000570 hinge; other site 498213000571 active site 498213000572 stage II sporulation protein D; Region: spore_II_D; TIGR02870 498213000573 Stage II sporulation protein; Region: SpoIID; pfam08486 498213000574 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 498213000575 Peptidase family M23; Region: Peptidase_M23; pfam01551 498213000576 Stage III sporulation protein D; Region: SpoIIID; pfam12116 498213000577 rod shape-determining protein Mbl; Provisional; Region: PRK13928 498213000578 MreB and similar proteins; Region: MreB_like; cd10225 498213000579 nucleotide binding site [chemical binding]; other site 498213000580 Mg binding site [ion binding]; other site 498213000581 putative protofilament interaction site [polypeptide binding]; other site 498213000582 RodZ interaction site [polypeptide binding]; other site 498213000583 Protein of unknown function (DUF1256); Region: DUF1256; pfam06866 498213000584 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 498213000585 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 498213000586 Ligand Binding Site [chemical binding]; other site 498213000587 S-adenosylmethionine synthetase; Validated; Region: PRK05250 498213000588 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 498213000589 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 498213000590 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 498213000591 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 498213000592 AAA domain; Region: AAA_30; pfam13604 498213000593 Family description; Region: UvrD_C_2; pfam13538 498213000594 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 498213000595 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 498213000596 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 498213000597 active site 498213000598 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 498213000599 30S subunit binding site; other site 498213000600 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 498213000601 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 498213000602 ATP binding site [chemical binding]; other site 498213000603 putative Mg++ binding site [ion binding]; other site 498213000604 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 498213000605 SEC-C motif; Region: SEC-C; pfam02810 498213000606 peptide chain release factor 2; Provisional; Region: PRK05589 498213000607 PCRF domain; Region: PCRF; pfam03462 498213000608 RF-1 domain; Region: RF-1; pfam00472 498213000609 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 498213000610 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 498213000611 Peptidase family M28; Region: Peptidase_M28; pfam04389 498213000612 metal binding site [ion binding]; metal-binding site 498213000613 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 498213000614 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 498213000615 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 498213000616 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 498213000617 RNA binding site [nucleotide binding]; other site 498213000618 Predicted membrane protein [Function unknown]; Region: COG3601 498213000619 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 498213000620 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 498213000621 Deinococcus radiodurans DR1119 and related proteins, metallophosphatase domain; Region: MPP_DR1119; cd07393 498213000622 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 498213000623 putative active site [active] 498213000624 putative metal binding site [ion binding]; other site 498213000625 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 498213000626 dimerization interface [polypeptide binding]; other site 498213000627 putative DNA binding site [nucleotide binding]; other site 498213000628 putative Zn2+ binding site [ion binding]; other site 498213000629 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 498213000630 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 498213000631 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 498213000632 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 498213000633 active site residue [active] 498213000634 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 498213000635 CPxP motif; other site 498213000636 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 498213000637 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 498213000638 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 498213000639 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 498213000640 synthetase active site [active] 498213000641 NTP binding site [chemical binding]; other site 498213000642 metal binding site [ion binding]; metal-binding site 498213000643 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 498213000644 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 498213000645 HIGH motif; other site 498213000646 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 498213000647 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 498213000648 active site 498213000649 KMSKS motif; other site 498213000650 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 498213000651 tRNA binding surface [nucleotide binding]; other site 498213000652 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 498213000653 active site residue [active] 498213000654 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 498213000655 HSP70 interaction site [polypeptide binding]; other site 498213000656 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 498213000657 putative active site [active] 498213000658 putative triphosphate binding site [ion binding]; other site 498213000659 dimer interface [polypeptide binding]; other site 498213000660 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 498213000661 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 498213000662 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 498213000663 intersubunit interface [polypeptide binding]; other site 498213000664 active site 498213000665 zinc binding site [ion binding]; other site 498213000666 Na+ binding site [ion binding]; other site 498213000667 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 498213000668 Predicted membrane protein [Function unknown]; Region: COG2323 498213000669 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 498213000670 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 498213000671 active site 498213000672 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 498213000673 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 498213000674 FOG: CBS domain [General function prediction only]; Region: COG0517 498213000675 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_9; cd04622 498213000676 putative lipid kinase; Reviewed; Region: PRK13059 498213000677 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 498213000678 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 498213000679 hypothetical protein; Provisional; Region: PRK00955 498213000680 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 498213000681 PRC-barrel domain; Region: PRC; pfam05239 498213000682 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 498213000683 MgtE intracellular N domain; Region: MgtE_N; smart00924 498213000684 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 498213000685 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 498213000686 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 498213000687 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 498213000688 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 498213000689 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 498213000690 dimer interface [polypeptide binding]; other site 498213000691 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213000692 catalytic residue [active] 498213000693 serine O-acetyltransferase; Region: cysE; TIGR01172 498213000694 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 498213000695 trimer interface [polypeptide binding]; other site 498213000696 active site 498213000697 substrate binding site [chemical binding]; other site 498213000698 CoA binding site [chemical binding]; other site 498213000699 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 498213000700 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 498213000701 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 498213000702 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 498213000703 putative acyl-acceptor binding pocket; other site 498213000704 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 498213000705 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 498213000706 minor groove reading motif; other site 498213000707 helix-hairpin-helix signature motif; other site 498213000708 substrate binding pocket [chemical binding]; other site 498213000709 active site 498213000710 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 498213000711 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 498213000712 Malic enzyme, N-terminal domain; Region: malic; pfam00390 498213000713 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 498213000714 putative NAD(P) binding site [chemical binding]; other site 498213000715 competence damage-inducible protein A; Provisional; Region: PRK00549 498213000716 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 498213000717 putative MPT binding site; other site 498213000718 Competence-damaged protein; Region: CinA; pfam02464 498213000719 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 498213000720 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 498213000721 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 498213000722 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 498213000723 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 498213000724 putative oligomer interface [polypeptide binding]; other site 498213000725 putative active site [active] 498213000726 metal binding site [ion binding]; metal-binding site 498213000727 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 498213000728 VanW like protein; Region: VanW; pfam04294 498213000729 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 498213000730 VanW like protein; Region: VanW; pfam04294 498213000731 G5 domain; Region: G5; pfam07501 498213000732 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 498213000733 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 498213000734 FeS/SAM binding site; other site 498213000735 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 498213000736 EDD domain protein, DegV family; Region: DegV; TIGR00762 498213000737 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 498213000738 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 498213000739 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 498213000740 ligand binding site [chemical binding]; other site 498213000741 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 498213000742 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 498213000743 Walker A/P-loop; other site 498213000744 ATP binding site [chemical binding]; other site 498213000745 Q-loop/lid; other site 498213000746 ABC transporter signature motif; other site 498213000747 Walker B; other site 498213000748 D-loop; other site 498213000749 H-loop/switch region; other site 498213000750 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 498213000751 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 498213000752 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 498213000753 TM-ABC transporter signature motif; other site 498213000754 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 498213000755 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 498213000756 TM-ABC transporter signature motif; other site 498213000757 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 498213000758 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 498213000759 NodB motif; other site 498213000760 active site 498213000761 catalytic site [active] 498213000762 Zn binding site [ion binding]; other site 498213000763 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 498213000764 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 498213000765 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 498213000766 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 498213000767 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 498213000768 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 498213000769 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 498213000770 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 498213000771 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 498213000772 Phosphoglycerate kinase; Region: PGK; pfam00162 498213000773 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 498213000774 substrate binding site [chemical binding]; other site 498213000775 hinge regions; other site 498213000776 ADP binding site [chemical binding]; other site 498213000777 catalytic site [active] 498213000778 triosephosphate isomerase; Provisional; Region: PRK14567 498213000779 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 498213000780 substrate binding site [chemical binding]; other site 498213000781 dimer interface [polypeptide binding]; other site 498213000782 catalytic triad [active] 498213000783 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 498213000784 phosphoglyceromutase; Provisional; Region: PRK05434 498213000785 enolase; Provisional; Region: eno; PRK00077 498213000786 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 498213000787 dimer interface [polypeptide binding]; other site 498213000788 metal binding site [ion binding]; metal-binding site 498213000789 substrate binding pocket [chemical binding]; other site 498213000790 protein translocase, SecG subunit; Region: secG; TIGR00810 498213000791 ribonuclease R; Region: RNase_R; TIGR02063 498213000792 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 498213000793 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 498213000794 RNB domain; Region: RNB; pfam00773 498213000795 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 498213000796 RNA binding site [nucleotide binding]; other site 498213000797 stationary phase survival protein SurE; Provisional; Region: PRK13933 498213000798 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 498213000799 SmpB-tmRNA interface; other site 498213000800 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 498213000801 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 498213000802 MepB protein; Region: MepB; pfam08877 498213000803 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 498213000804 FAD binding domain; Region: FAD_binding_4; pfam01565 498213000805 Berberine and berberine like; Region: BBE; pfam08031 498213000806 Methyltransferase domain; Region: Methyltransf_31; pfam13847 498213000807 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 498213000808 S-adenosylmethionine binding site [chemical binding]; other site 498213000809 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 498213000810 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 498213000811 ligand binding site [chemical binding]; other site 498213000812 flexible hinge region; other site 498213000813 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 498213000814 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 498213000815 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 498213000816 substrate binding site [chemical binding]; other site 498213000817 active site 498213000818 putative catalytic residue [active] 498213000819 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 498213000820 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 498213000821 catalytic residue [active] 498213000822 flagellin; Provisional; Region: PRK12804 498213000823 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 498213000824 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 498213000825 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 498213000826 active site 498213000827 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213000828 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 498213000829 active site 498213000830 phosphorylation site [posttranslational modification] 498213000831 intermolecular recognition site; other site 498213000832 dimerization interface [polypeptide binding]; other site 498213000833 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 498213000834 DNA binding site [nucleotide binding] 498213000835 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 498213000836 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213000837 Walker A/P-loop; other site 498213000838 ATP binding site [chemical binding]; other site 498213000839 Q-loop/lid; other site 498213000840 ABC transporter signature motif; other site 498213000841 Walker B; other site 498213000842 D-loop; other site 498213000843 H-loop/switch region; other site 498213000844 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 498213000845 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213000846 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 498213000847 phosphorylation site [posttranslational modification] 498213000848 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 498213000849 ATP binding site [chemical binding]; other site 498213000850 Mg2+ binding site [ion binding]; other site 498213000851 G-X-G motif; other site 498213000852 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 498213000853 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 498213000854 Protein of unknown function DUF262; Region: DUF262; pfam03235 498213000855 Protein of unknown function DUF262; Region: DUF262; pfam03235 498213000856 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 498213000857 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 498213000858 active site 498213000859 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 498213000860 Malic enzyme, N-terminal domain; Region: malic; pfam00390 498213000861 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 498213000862 putative NAD(P) binding site [chemical binding]; other site 498213000863 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 498213000864 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 498213000865 PAS domain; Region: PAS; smart00091 498213000866 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 498213000867 ATP binding site [chemical binding]; other site 498213000868 Mg2+ binding site [ion binding]; other site 498213000869 G-X-G motif; other site 498213000870 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 498213000871 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 498213000872 active site 498213000873 phosphorylation site [posttranslational modification] 498213000874 intermolecular recognition site; other site 498213000875 dimerization interface [polypeptide binding]; other site 498213000876 HTH domain; Region: HTH_11; cl17392 498213000877 lysine transporter; Provisional; Region: PRK10836 498213000878 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 498213000879 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 498213000880 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 498213000881 trimer interface [polypeptide binding]; other site 498213000882 active site 498213000883 substrate binding site [chemical binding]; other site 498213000884 CoA binding site [chemical binding]; other site 498213000885 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 498213000886 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 498213000887 active site 498213000888 catalytic motif [active] 498213000889 Zn binding site [ion binding]; other site 498213000890 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213000891 Coenzyme A binding pocket [chemical binding]; other site 498213000892 RibD C-terminal domain; Region: RibD_C; cl17279 498213000893 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 498213000894 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 498213000895 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 498213000896 active site 498213000897 catalytic site [active] 498213000898 substrate binding site [chemical binding]; other site 498213000899 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; cl00038 498213000900 Dimer interface [polypeptide binding]; other site 498213000901 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213000902 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 498213000903 active site 498213000904 phosphorylation site [posttranslational modification] 498213000905 intermolecular recognition site; other site 498213000906 dimerization interface [polypeptide binding]; other site 498213000907 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 498213000908 DNA binding site [nucleotide binding] 498213000909 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 498213000910 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213000911 dimer interface [polypeptide binding]; other site 498213000912 phosphorylation site [posttranslational modification] 498213000913 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 498213000914 ATP binding site [chemical binding]; other site 498213000915 Mg2+ binding site [ion binding]; other site 498213000916 G-X-G motif; other site 498213000917 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 498213000918 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213000919 Walker A/P-loop; other site 498213000920 ATP binding site [chemical binding]; other site 498213000921 Q-loop/lid; other site 498213000922 ABC transporter signature motif; other site 498213000923 Walker B; other site 498213000924 D-loop; other site 498213000925 H-loop/switch region; other site 498213000926 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 498213000927 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 498213000928 Isochorismatase family; Region: Isochorismatase; pfam00857 498213000929 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 498213000930 catalytic triad [active] 498213000931 conserved cis-peptide bond; other site 498213000932 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 498213000933 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 498213000934 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 498213000935 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 498213000936 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 498213000937 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 498213000938 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 498213000939 catalytic loop [active] 498213000940 iron binding site [ion binding]; other site 498213000941 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 498213000942 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 498213000943 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 498213000944 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 498213000945 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 498213000946 catalytic residues [active] 498213000947 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 498213000948 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 498213000949 active site 498213000950 phosphorylation site [posttranslational modification] 498213000951 intermolecular recognition site; other site 498213000952 dimerization interface [polypeptide binding]; other site 498213000953 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 498213000954 DNA binding site [nucleotide binding] 498213000955 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213000956 HAMP domain; Region: HAMP; pfam00672 498213000957 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 498213000958 dimer interface [polypeptide binding]; other site 498213000959 phosphorylation site [posttranslational modification] 498213000960 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 498213000961 ATP binding site [chemical binding]; other site 498213000962 Mg2+ binding site [ion binding]; other site 498213000963 G-X-G motif; other site 498213000964 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 498213000965 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 498213000966 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 498213000967 Beta-lactamase; Region: Beta-lactamase; pfam00144 498213000968 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213000969 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 498213000970 active site 498213000971 phosphorylation site [posttranslational modification] 498213000972 intermolecular recognition site; other site 498213000973 dimerization interface [polypeptide binding]; other site 498213000974 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 498213000975 DNA binding site [nucleotide binding] 498213000976 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213000977 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 498213000978 dimerization interface [polypeptide binding]; other site 498213000979 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 498213000980 dimer interface [polypeptide binding]; other site 498213000981 phosphorylation site [posttranslational modification] 498213000982 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 498213000983 ATP binding site [chemical binding]; other site 498213000984 Mg2+ binding site [ion binding]; other site 498213000985 G-X-G motif; other site 498213000986 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 498213000987 FAD binding domain; Region: FAD_binding_4; pfam01565 498213000988 Berberine and berberine like; Region: BBE; pfam08031 498213000989 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 498213000990 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 498213000991 NAD binding site [chemical binding]; other site 498213000992 sugar binding site [chemical binding]; other site 498213000993 divalent metal binding site [ion binding]; other site 498213000994 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 498213000995 dimer interface [polypeptide binding]; other site 498213000996 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 498213000997 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 498213000998 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 498213000999 active site turn [active] 498213001000 phosphorylation site [posttranslational modification] 498213001001 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 498213001002 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 498213001003 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 498213001004 putative active site [active] 498213001005 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 498213001006 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 498213001007 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 498213001008 putative active site [active] 498213001009 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 498213001010 HPr interaction site; other site 498213001011 glycerol kinase (GK) interaction site [polypeptide binding]; other site 498213001012 active site 498213001013 phosphorylation site [posttranslational modification] 498213001014 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213001015 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 498213001016 active site 498213001017 phosphorylation site [posttranslational modification] 498213001018 intermolecular recognition site; other site 498213001019 dimerization interface [polypeptide binding]; other site 498213001020 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 498213001021 DNA binding site [nucleotide binding] 498213001022 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213001023 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 498213001024 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 498213001025 ATP binding site [chemical binding]; other site 498213001026 Mg2+ binding site [ion binding]; other site 498213001027 G-X-G motif; other site 498213001028 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 498213001029 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 498213001030 Walker A/P-loop; other site 498213001031 ATP binding site [chemical binding]; other site 498213001032 Q-loop/lid; other site 498213001033 ABC transporter signature motif; other site 498213001034 Walker B; other site 498213001035 D-loop; other site 498213001036 H-loop/switch region; other site 498213001037 alanine racemase; Reviewed; Region: alr; PRK00053 498213001038 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 498213001039 active site 498213001040 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 498213001041 dimer interface [polypeptide binding]; other site 498213001042 substrate binding site [chemical binding]; other site 498213001043 catalytic residues [active] 498213001044 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 498213001045 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 498213001046 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 498213001047 active site turn [active] 498213001048 phosphorylation site [posttranslational modification] 498213001049 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 498213001050 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 498213001051 NAD binding site [chemical binding]; other site 498213001052 sugar binding site [chemical binding]; other site 498213001053 divalent metal binding site [ion binding]; other site 498213001054 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 498213001055 dimer interface [polypeptide binding]; other site 498213001056 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 498213001057 HPr interaction site; other site 498213001058 glycerol kinase (GK) interaction site [polypeptide binding]; other site 498213001059 active site 498213001060 phosphorylation site [posttranslational modification] 498213001061 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 498213001062 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 498213001063 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 498213001064 putative active site [active] 498213001065 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 498213001066 DNA-binding site [nucleotide binding]; DNA binding site 498213001067 RNA-binding motif; other site 498213001068 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 498213001069 Predicted transcriptional regulator [Transcription]; Region: COG1959 498213001070 Transcriptional regulator; Region: Rrf2; pfam02082 498213001071 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 498213001072 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 498213001073 catalytic residues [active] 498213001074 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 498213001075 NADH(P)-binding; Region: NAD_binding_10; pfam13460 498213001076 NAD binding site [chemical binding]; other site 498213001077 substrate binding site [chemical binding]; other site 498213001078 putative active site [active] 498213001079 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 498213001080 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 498213001081 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 498213001082 putative active site [active] 498213001083 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 498213001084 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 498213001085 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 498213001086 active site turn [active] 498213001087 phosphorylation site [posttranslational modification] 498213001088 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 498213001089 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 498213001090 NAD binding site [chemical binding]; other site 498213001091 sugar binding site [chemical binding]; other site 498213001092 divalent metal binding site [ion binding]; other site 498213001093 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 498213001094 dimer interface [polypeptide binding]; other site 498213001095 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 498213001096 HPr interaction site; other site 498213001097 glycerol kinase (GK) interaction site [polypeptide binding]; other site 498213001098 active site 498213001099 phosphorylation site [posttranslational modification] 498213001100 Dehydratase family; Region: ILVD_EDD; pfam00920 498213001101 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 498213001102 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 498213001103 active site 498213001104 intersubunit interface [polypeptide binding]; other site 498213001105 catalytic residue [active] 498213001106 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 498213001107 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 498213001108 substrate binding site [chemical binding]; other site 498213001109 ATP binding site [chemical binding]; other site 498213001110 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 498213001111 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 498213001112 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 498213001113 active site 498213001114 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 498213001115 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213001116 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 498213001117 active site 498213001118 phosphorylation site [posttranslational modification] 498213001119 intermolecular recognition site; other site 498213001120 dimerization interface [polypeptide binding]; other site 498213001121 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 498213001122 DNA binding site [nucleotide binding] 498213001123 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213001124 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 498213001125 dimerization interface [polypeptide binding]; other site 498213001126 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 498213001127 dimer interface [polypeptide binding]; other site 498213001128 phosphorylation site [posttranslational modification] 498213001129 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 498213001130 ATP binding site [chemical binding]; other site 498213001131 Mg2+ binding site [ion binding]; other site 498213001132 G-X-G motif; other site 498213001133 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 498213001134 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 498213001135 Ligand binding site; other site 498213001136 Putative Catalytic site; other site 498213001137 DXD motif; other site 498213001138 Predicted membrane protein [Function unknown]; Region: COG2246 498213001139 GtrA-like protein; Region: GtrA; pfam04138 498213001140 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 498213001141 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 498213001142 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 498213001143 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 498213001144 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213001145 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 498213001146 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 498213001147 intersubunit interface [polypeptide binding]; other site 498213001148 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 498213001149 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 498213001150 ABC-ATPase subunit interface; other site 498213001151 dimer interface [polypeptide binding]; other site 498213001152 putative PBP binding regions; other site 498213001153 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 498213001154 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 498213001155 Walker A/P-loop; other site 498213001156 ATP binding site [chemical binding]; other site 498213001157 Q-loop/lid; other site 498213001158 ABC transporter signature motif; other site 498213001159 Walker B; other site 498213001160 D-loop; other site 498213001161 H-loop/switch region; other site 498213001162 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 498213001163 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 498213001164 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 498213001165 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213001166 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 498213001167 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 498213001168 intersubunit interface [polypeptide binding]; other site 498213001169 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 498213001170 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 498213001171 intersubunit interface [polypeptide binding]; other site 498213001172 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 498213001173 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 498213001174 ABC-ATPase subunit interface; other site 498213001175 dimer interface [polypeptide binding]; other site 498213001176 putative PBP binding regions; other site 498213001177 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 498213001178 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 498213001179 ABC-ATPase subunit interface; other site 498213001180 dimer interface [polypeptide binding]; other site 498213001181 putative PBP binding regions; other site 498213001182 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 498213001183 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 498213001184 Walker A/P-loop; other site 498213001185 ATP binding site [chemical binding]; other site 498213001186 Q-loop/lid; other site 498213001187 ABC transporter signature motif; other site 498213001188 Walker B; other site 498213001189 D-loop; other site 498213001190 H-loop/switch region; other site 498213001191 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 498213001192 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 498213001193 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 498213001194 Walker A/P-loop; other site 498213001195 ATP binding site [chemical binding]; other site 498213001196 Q-loop/lid; other site 498213001197 ABC transporter signature motif; other site 498213001198 Walker B; other site 498213001199 D-loop; other site 498213001200 H-loop/switch region; other site 498213001201 xanthine permease; Region: pbuX; TIGR03173 498213001202 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 498213001203 active site 498213001204 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213001205 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 498213001206 active site 498213001207 phosphorylation site [posttranslational modification] 498213001208 intermolecular recognition site; other site 498213001209 dimerization interface [polypeptide binding]; other site 498213001210 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 498213001211 DNA binding site [nucleotide binding] 498213001212 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213001213 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 498213001214 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 498213001215 ATP binding site [chemical binding]; other site 498213001216 Mg2+ binding site [ion binding]; other site 498213001217 G-X-G motif; other site 498213001218 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 498213001219 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 498213001220 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 498213001221 Walker A/P-loop; other site 498213001222 ATP binding site [chemical binding]; other site 498213001223 Q-loop/lid; other site 498213001224 ABC transporter signature motif; other site 498213001225 Walker B; other site 498213001226 D-loop; other site 498213001227 H-loop/switch region; other site 498213001228 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 498213001229 FtsX-like permease family; Region: FtsX; pfam02687 498213001230 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 498213001231 active site 498213001232 NTP binding site [chemical binding]; other site 498213001233 metal binding triad [ion binding]; metal-binding site 498213001234 antibiotic binding site [chemical binding]; other site 498213001235 Protein of unknown function DUF86; Region: DUF86; pfam01934 498213001236 LrgA family; Region: LrgA; pfam03788 498213001237 LrgB-like family; Region: LrgB; pfam04172 498213001238 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 498213001239 Radical SAM superfamily; Region: Radical_SAM; pfam04055 498213001240 FeS/SAM binding site; other site 498213001241 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 498213001242 hypothetical protein; Provisional; Region: PRK13663 498213001243 Accessory gene regulator B; Region: AgrB; pfam04647 498213001244 cyclic lactone autoinducer peptide; Region: quorum_AgrD; TIGR04223 498213001245 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 498213001246 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 498213001247 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 498213001248 metal binding site [ion binding]; metal-binding site 498213001249 active site 498213001250 I-site; other site 498213001251 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 498213001252 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498213001253 Zn2+ binding site [ion binding]; other site 498213001254 Mg2+ binding site [ion binding]; other site 498213001255 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 498213001256 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 498213001257 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 498213001258 PAS domain S-box; Region: sensory_box; TIGR00229 498213001259 PAS domain; Region: PAS; smart00091 498213001260 putative active site [active] 498213001261 heme pocket [chemical binding]; other site 498213001262 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213001263 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 498213001264 dimer interface [polypeptide binding]; other site 498213001265 phosphorylation site [posttranslational modification] 498213001266 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 498213001267 ATP binding site [chemical binding]; other site 498213001268 Mg2+ binding site [ion binding]; other site 498213001269 G-X-G motif; other site 498213001270 Accessory gene regulator B; Region: AgrB; pfam04647 498213001271 cyclic lactone autoinducer peptide; Region: quorum_AgrD; TIGR04223 498213001272 PAS domain S-box; Region: sensory_box; TIGR00229 498213001273 PAS domain; Region: PAS_8; pfam13188 498213001274 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213001275 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 498213001276 dimer interface [polypeptide binding]; other site 498213001277 phosphorylation site [posttranslational modification] 498213001278 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 498213001279 ATP binding site [chemical binding]; other site 498213001280 Mg2+ binding site [ion binding]; other site 498213001281 G-X-G motif; other site 498213001282 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 498213001283 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 498213001284 Ligand Binding Site [chemical binding]; other site 498213001285 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 498213001286 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 498213001287 non-specific DNA binding site [nucleotide binding]; other site 498213001288 salt bridge; other site 498213001289 sequence-specific DNA binding site [nucleotide binding]; other site 498213001290 Cupin domain; Region: Cupin_2; pfam07883 498213001291 Amino acid permease; Region: AA_permease_2; pfam13520 498213001292 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 498213001293 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 498213001294 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 498213001295 active site 498213001296 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 498213001297 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 498213001298 putative catalytic cysteine [active] 498213001299 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 498213001300 putative active site [active] 498213001301 metal binding site [ion binding]; metal-binding site 498213001302 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 498213001303 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 498213001304 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 498213001305 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 498213001306 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 498213001307 active site 498213001308 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 498213001309 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 498213001310 NodB motif; other site 498213001311 active site 498213001312 catalytic site [active] 498213001313 Zn binding site [ion binding]; other site 498213001314 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213001315 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 498213001316 active site 498213001317 phosphorylation site [posttranslational modification] 498213001318 intermolecular recognition site; other site 498213001319 dimerization interface [polypeptide binding]; other site 498213001320 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 498213001321 DNA binding site [nucleotide binding] 498213001322 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213001323 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 498213001324 dimerization interface [polypeptide binding]; other site 498213001325 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 498213001326 dimer interface [polypeptide binding]; other site 498213001327 phosphorylation site [posttranslational modification] 498213001328 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 498213001329 ATP binding site [chemical binding]; other site 498213001330 Mg2+ binding site [ion binding]; other site 498213001331 G-X-G motif; other site 498213001332 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 498213001333 S-adenosylmethionine binding site [chemical binding]; other site 498213001334 Uncharacterized conserved protein [Function unknown]; Region: COG0398 498213001335 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 498213001336 CHASE4 domain; Region: CHASE4; pfam05228 498213001337 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 498213001338 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 498213001339 metal binding site [ion binding]; metal-binding site 498213001340 active site 498213001341 I-site; other site 498213001342 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 498213001343 Putative amidase domain; Region: Amidase_6; pfam12671 498213001344 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 498213001345 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 498213001346 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 498213001347 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 498213001348 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 498213001349 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 498213001350 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 498213001351 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 498213001352 catalytic residue [active] 498213001353 Predicted membrane protein [Function unknown]; Region: COG2855 498213001354 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 498213001355 active site 498213001356 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213001357 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 498213001358 active site 498213001359 phosphorylation site [posttranslational modification] 498213001360 intermolecular recognition site; other site 498213001361 dimerization interface [polypeptide binding]; other site 498213001362 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 498213001363 DNA binding site [nucleotide binding] 498213001364 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213001365 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 498213001366 dimerization interface [polypeptide binding]; other site 498213001367 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 498213001368 dimer interface [polypeptide binding]; other site 498213001369 phosphorylation site [posttranslational modification] 498213001370 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 498213001371 ATP binding site [chemical binding]; other site 498213001372 Mg2+ binding site [ion binding]; other site 498213001373 G-X-G motif; other site 498213001374 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 498213001375 Na binding site [ion binding]; other site 498213001376 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 498213001377 SLBB domain; Region: SLBB; pfam10531 498213001378 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 498213001379 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 498213001380 FMN-binding domain; Region: FMN_bind; cl01081 498213001381 electron transport complex RsxE subunit; Provisional; Region: PRK12405 498213001382 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 498213001383 CheD chemotactic sensory transduction; Region: CheD; cl00810 498213001384 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 498213001385 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 498213001386 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 498213001387 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213001388 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213001389 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213001390 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 498213001391 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 498213001392 trimer interface [polypeptide binding]; other site 498213001393 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 498213001394 ApbE family; Region: ApbE; pfam02424 498213001395 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213001396 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213001397 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213001398 Bacterial Ig-like domain; Region: Big_5; pfam13205 498213001399 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213001400 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213001401 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213001402 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213001403 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213001404 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213001405 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 498213001406 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 498213001407 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 498213001408 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 498213001409 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213001410 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213001411 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213001412 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 498213001413 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 498213001414 Acyltransferase family; Region: Acyl_transf_3; pfam01757 498213001415 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 498213001416 Bacterial Ig-like domain; Region: Big_5; pfam13205 498213001417 PBP superfamily domain; Region: PBP_like_2; cl17296 498213001418 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 498213001419 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213001420 dimer interface [polypeptide binding]; other site 498213001421 conserved gate region; other site 498213001422 putative PBP binding loops; other site 498213001423 ABC-ATPase subunit interface; other site 498213001424 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 498213001425 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213001426 dimer interface [polypeptide binding]; other site 498213001427 conserved gate region; other site 498213001428 putative PBP binding loops; other site 498213001429 ABC-ATPase subunit interface; other site 498213001430 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 498213001431 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 498213001432 Walker A/P-loop; other site 498213001433 ATP binding site [chemical binding]; other site 498213001434 Q-loop/lid; other site 498213001435 ABC transporter signature motif; other site 498213001436 Walker B; other site 498213001437 D-loop; other site 498213001438 H-loop/switch region; other site 498213001439 Soluble P-type ATPase [General function prediction only]; Region: COG4087 498213001440 amino acid transporter; Region: 2A0306; TIGR00909 498213001441 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 498213001442 Protein of unknown function DUF45; Region: DUF45; pfam01863 498213001443 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 498213001444 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 498213001445 dimer interface [polypeptide binding]; other site 498213001446 ssDNA binding site [nucleotide binding]; other site 498213001447 tetramer (dimer of dimers) interface [polypeptide binding]; other site 498213001448 Predicted membrane protein [Function unknown]; Region: COG1971 498213001449 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 498213001450 metal binding site 2 [ion binding]; metal-binding site 498213001451 putative DNA binding helix; other site 498213001452 metal binding site 1 [ion binding]; metal-binding site 498213001453 dimer interface [polypeptide binding]; other site 498213001454 structural Zn2+ binding site [ion binding]; other site 498213001455 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 498213001456 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498213001457 Zn2+ binding site [ion binding]; other site 498213001458 Mg2+ binding site [ion binding]; other site 498213001459 Rhomboid family; Region: Rhomboid; pfam01694 498213001460 Cache domain; Region: Cache_1; pfam02743 498213001461 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 498213001462 dimerization interface [polypeptide binding]; other site 498213001463 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498213001464 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213001465 dimer interface [polypeptide binding]; other site 498213001466 putative CheW interface [polypeptide binding]; other site 498213001467 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 498213001468 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 498213001469 Walker A motif; other site 498213001470 ATP binding site [chemical binding]; other site 498213001471 Walker B motif; other site 498213001472 arginine finger; other site 498213001473 Peptidase family M41; Region: Peptidase_M41; pfam01434 498213001474 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 498213001475 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 498213001476 RNA/DNA hybrid binding site [nucleotide binding]; other site 498213001477 active site 498213001478 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 498213001479 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 498213001480 non-specific DNA binding site [nucleotide binding]; other site 498213001481 salt bridge; other site 498213001482 sequence-specific DNA binding site [nucleotide binding]; other site 498213001483 Tetratricopeptide repeat; Region: TPR_12; pfam13424 498213001484 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 498213001485 binding surface 498213001486 TPR motif; other site 498213001487 Tetratricopeptide repeat; Region: TPR_12; pfam13424 498213001488 Helix-turn-helix domain; Region: HTH_19; pfam12844 498213001489 Tetratricopeptide repeat; Region: TPR_12; pfam13424 498213001490 DJ-1 family protein; Region: not_thiJ; TIGR01383 498213001491 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 498213001492 conserved cys residue [active] 498213001493 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 498213001494 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 498213001495 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 498213001496 Clp amino terminal domain; Region: Clp_N; pfam02861 498213001497 Clp amino terminal domain; Region: Clp_N; pfam02861 498213001498 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 498213001499 Walker A motif; other site 498213001500 ATP binding site [chemical binding]; other site 498213001501 Walker B motif; other site 498213001502 arginine finger; other site 498213001503 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 498213001504 Walker A motif; other site 498213001505 ATP binding site [chemical binding]; other site 498213001506 Walker B motif; other site 498213001507 arginine finger; other site 498213001508 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 498213001509 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 498213001510 catalytic triad [active] 498213001511 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 498213001512 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 498213001513 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 498213001514 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 498213001515 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 498213001516 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 498213001517 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 498213001518 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 498213001519 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 498213001520 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 498213001521 putative acyl-acceptor binding pocket; other site 498213001522 isopropylmalate/citramalate/homocitrate synthases; Region: LEU1_arch; TIGR02090 498213001523 Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_Re_CS; cd07947 498213001524 active site 498213001525 catalytic residues [active] 498213001526 metal binding site [ion binding]; metal-binding site 498213001527 aconitate hydratase; Validated; Region: PRK07229 498213001528 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 498213001529 substrate binding site [chemical binding]; other site 498213001530 ligand binding site [chemical binding]; other site 498213001531 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 498213001532 substrate binding site [chemical binding]; other site 498213001533 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 498213001534 tartrate dehydrogenase; Region: TTC; TIGR02089 498213001535 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 498213001536 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 498213001537 Walker A/P-loop; other site 498213001538 ATP binding site [chemical binding]; other site 498213001539 Q-loop/lid; other site 498213001540 ABC transporter signature motif; other site 498213001541 Walker B; other site 498213001542 D-loop; other site 498213001543 H-loop/switch region; other site 498213001544 Permease; Region: Permease; cl00510 498213001545 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 498213001546 Uncharacterized conserved protein [Function unknown]; Region: COG2155 498213001547 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 498213001548 tetramerization interface [polypeptide binding]; other site 498213001549 active site 498213001550 Pantoate-beta-alanine ligase; Region: PanC; cd00560 498213001551 pantoate--beta-alanine ligase; Region: panC; TIGR00018 498213001552 active site 498213001553 ATP-binding site [chemical binding]; other site 498213001554 pantoate-binding site; other site 498213001555 HXXH motif; other site 498213001556 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 498213001557 oligomerization interface [polypeptide binding]; other site 498213001558 active site 498213001559 metal binding site [ion binding]; metal-binding site 498213001560 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 498213001561 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 498213001562 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 498213001563 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 498213001564 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 498213001565 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 498213001566 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 498213001567 Family description; Region: UvrD_C_2; pfam13538 498213001568 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 498213001569 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 498213001570 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213001571 dimer interface [polypeptide binding]; other site 498213001572 putative CheW interface [polypeptide binding]; other site 498213001573 peptidase T; Region: peptidase-T; TIGR01882 498213001574 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 498213001575 metal binding site [ion binding]; metal-binding site 498213001576 dimer interface [polypeptide binding]; other site 498213001577 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 498213001578 active site 498213001579 nucleophile elbow; other site 498213001580 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 498213001581 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_23; cd09011 498213001582 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 498213001583 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 498213001584 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 498213001585 non-specific DNA binding site [nucleotide binding]; other site 498213001586 salt bridge; other site 498213001587 sequence-specific DNA binding site [nucleotide binding]; other site 498213001588 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 498213001589 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213001590 dimer interface [polypeptide binding]; other site 498213001591 conserved gate region; other site 498213001592 putative PBP binding loops; other site 498213001593 ABC-ATPase subunit interface; other site 498213001594 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 498213001595 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 498213001596 substrate binding pocket [chemical binding]; other site 498213001597 membrane-bound complex binding site; other site 498213001598 hinge residues; other site 498213001599 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 498213001600 S-adenosylmethionine binding site [chemical binding]; other site 498213001601 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 498213001602 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 498213001603 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 498213001604 thiamine phosphate binding site [chemical binding]; other site 498213001605 active site 498213001606 pyrophosphate binding site [ion binding]; other site 498213001607 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 498213001608 substrate binding site [chemical binding]; other site 498213001609 multimerization interface [polypeptide binding]; other site 498213001610 ATP binding site [chemical binding]; other site 498213001611 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 498213001612 dimer interface [polypeptide binding]; other site 498213001613 substrate binding site [chemical binding]; other site 498213001614 ATP binding site [chemical binding]; other site 498213001615 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 498213001616 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 498213001617 ATP-grasp domain; Region: ATP-grasp_4; cl17255 498213001618 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 498213001619 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 498213001620 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 498213001621 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 498213001622 TM-ABC transporter signature motif; other site 498213001623 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 498213001624 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 498213001625 TM-ABC transporter signature motif; other site 498213001626 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 498213001627 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 498213001628 Walker A/P-loop; other site 498213001629 ATP binding site [chemical binding]; other site 498213001630 Q-loop/lid; other site 498213001631 ABC transporter signature motif; other site 498213001632 Walker B; other site 498213001633 D-loop; other site 498213001634 H-loop/switch region; other site 498213001635 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 498213001636 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 498213001637 Walker A/P-loop; other site 498213001638 ATP binding site [chemical binding]; other site 498213001639 Q-loop/lid; other site 498213001640 ABC transporter signature motif; other site 498213001641 Walker B; other site 498213001642 D-loop; other site 498213001643 H-loop/switch region; other site 498213001644 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 498213001645 Uncharacterized conserved protein [Function unknown]; Region: COG2966 498213001646 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 498213001647 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 498213001648 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 498213001649 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498213001650 DNA-binding site [nucleotide binding]; DNA binding site 498213001651 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 498213001652 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213001653 homodimer interface [polypeptide binding]; other site 498213001654 catalytic residue [active] 498213001655 LemA family; Region: LemA; cl00742 498213001656 Repair protein; Region: Repair_PSII; pfam04536 498213001657 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 498213001658 nudix motif; other site 498213001659 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 498213001660 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 498213001661 Methyltransferase domain; Region: Methyltransf_31; pfam13847 498213001662 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 498213001663 S-adenosylmethionine binding site [chemical binding]; other site 498213001664 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 498213001665 salt bridge; other site 498213001666 non-specific DNA binding site [nucleotide binding]; other site 498213001667 sequence-specific DNA binding site [nucleotide binding]; other site 498213001668 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 498213001669 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 498213001670 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 498213001671 active site 498213001672 metal binding site [ion binding]; metal-binding site 498213001673 DNA binding site [nucleotide binding] 498213001674 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 498213001675 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213001676 AAA domain; Region: AAA_23; pfam13476 498213001677 Walker A/P-loop; other site 498213001678 ATP binding site [chemical binding]; other site 498213001679 Q-loop/lid; other site 498213001680 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213001681 ABC transporter signature motif; other site 498213001682 Walker B; other site 498213001683 D-loop; other site 498213001684 H-loop/switch region; other site 498213001685 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 498213001686 ADP-ribose binding site [chemical binding]; other site 498213001687 dimer interface [polypeptide binding]; other site 498213001688 active site 498213001689 nudix motif; other site 498213001690 metal binding site [ion binding]; metal-binding site 498213001691 Uncharacterized conserved protein [Function unknown]; Region: COG1284 498213001692 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 498213001693 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 498213001694 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 498213001695 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 498213001696 dimerization interface [polypeptide binding]; other site 498213001697 putative DNA binding site [nucleotide binding]; other site 498213001698 putative Zn2+ binding site [ion binding]; other site 498213001699 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 498213001700 Heavy-metal-associated domain; Region: HMA; pfam00403 498213001701 metal-binding site [ion binding] 498213001702 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 498213001703 Soluble P-type ATPase [General function prediction only]; Region: COG4087 498213001704 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 498213001705 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 498213001706 putative active site [active] 498213001707 PhoH-like protein; Region: PhoH; pfam02562 498213001708 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 498213001709 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 498213001710 NADPH bind site [chemical binding]; other site 498213001711 putative FMN binding site [chemical binding]; other site 498213001712 thiazole/oxazole-forming peptide maturase, SagC family component; Region: cyclo_dehy_ocin; TIGR03603 498213001713 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 498213001714 YcaO-like family; Region: YcaO; pfam02624 498213001715 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 498213001716 CAAX protease self-immunity; Region: Abi; pfam02517 498213001717 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 498213001718 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213001719 Walker A/P-loop; other site 498213001720 ATP binding site [chemical binding]; other site 498213001721 Q-loop/lid; other site 498213001722 ABC transporter signature motif; other site 498213001723 Walker B; other site 498213001724 D-loop; other site 498213001725 H-loop/switch region; other site 498213001726 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 498213001727 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 498213001728 ABC-2 type transporter; Region: ABC2_membrane; cl17235 498213001729 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 498213001730 ABC-2 type transporter; Region: ABC2_membrane; cl17235 498213001731 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 498213001732 Peptidase family M50; Region: Peptidase_M50; pfam02163 498213001733 active site 498213001734 putative substrate binding region [chemical binding]; other site 498213001735 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 498213001736 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 498213001737 transmembrane helices; other site 498213001738 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 498213001739 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 498213001740 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 498213001741 dimer interface [polypeptide binding]; other site 498213001742 catalytic triad [active] 498213001743 peroxidatic and resolving cysteines [active] 498213001744 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 498213001745 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498213001746 NAD(P) binding site [chemical binding]; other site 498213001747 active site 498213001748 Response regulator receiver domain; Region: Response_reg; pfam00072 498213001749 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 498213001750 active site 498213001751 phosphorylation site [posttranslational modification] 498213001752 intermolecular recognition site; other site 498213001753 dimerization interface [polypeptide binding]; other site 498213001754 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 498213001755 CHAP domain; Region: CHAP; pfam05257 498213001756 Bacterial SH3 domain; Region: SH3_3; pfam08239 498213001757 Bacterial SH3 domain; Region: SH3_3; cl17532 498213001758 Bacterial SH3 domain; Region: SH3_3; pfam08239 498213001759 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 498213001760 Bacterial SH3 domain; Region: SH3_3; pfam08239 498213001761 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 498213001762 NlpC/P60 family; Region: NLPC_P60; pfam00877 498213001763 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 498213001764 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 498213001765 PAS fold; Region: PAS_4; pfam08448 498213001766 Response regulator receiver domain; Region: Response_reg; pfam00072 498213001767 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 498213001768 active site 498213001769 phosphorylation site [posttranslational modification] 498213001770 intermolecular recognition site; other site 498213001771 dimerization interface [polypeptide binding]; other site 498213001772 Hpt domain; Region: Hpt; pfam01627 498213001773 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 498213001774 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498213001775 Zn2+ binding site [ion binding]; other site 498213001776 Mg2+ binding site [ion binding]; other site 498213001777 Cache domain; Region: Cache_1; pfam02743 498213001778 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 498213001779 dimerization interface [polypeptide binding]; other site 498213001780 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498213001781 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213001782 dimer interface [polypeptide binding]; other site 498213001783 putative CheW interface [polypeptide binding]; other site 498213001784 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 498213001785 active site 498213001786 phosphorylation site [posttranslational modification] 498213001787 intermolecular recognition site; other site 498213001788 dimerization interface [polypeptide binding]; other site 498213001789 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 498213001790 seryl-tRNA synthetase; Provisional; Region: PRK05431 498213001791 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 498213001792 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 498213001793 motif 1; other site 498213001794 dimer interface [polypeptide binding]; other site 498213001795 active site 498213001796 motif 2; other site 498213001797 motif 3; other site 498213001798 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 498213001799 DEAD_2; Region: DEAD_2; pfam06733 498213001800 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 498213001801 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 498213001802 Predicted transcriptional regulators [Transcription]; Region: COG1725 498213001803 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498213001804 DNA-binding site [nucleotide binding]; DNA binding site 498213001805 TrkA-C domain; Region: TrkA_C; pfam02080 498213001806 N(5)-(carboxyethyl)ornithine synthase; Region: ceo_syn; cd12181 498213001807 putative active site [active] 498213001808 putative ligand binding site [chemical binding]; other site 498213001809 putative NAD(P) binding site [chemical binding]; other site 498213001810 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 498213001811 Hemerythrin; Region: Hemerythrin; cd12107 498213001812 Fe binding site [ion binding]; other site 498213001813 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 498213001814 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 498213001815 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 498213001816 Amino acid permease; Region: AA_permease_2; pfam13520 498213001817 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 498213001818 AsnC family; Region: AsnC_trans_reg; pfam01037 498213001819 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 498213001820 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 498213001821 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 498213001822 Spore germination protein; Region: Spore_permease; cl17796 498213001823 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 498213001824 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 498213001825 trimer interface [polypeptide binding]; other site 498213001826 putative metal binding site [ion binding]; other site 498213001827 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 498213001828 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 498213001829 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 498213001830 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 498213001831 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 498213001832 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 498213001833 Soluble P-type ATPase [General function prediction only]; Region: COG4087 498213001834 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 498213001835 Chromate transporter; Region: Chromate_transp; pfam02417 498213001836 Chromate transporter; Region: Chromate_transp; pfam02417 498213001837 PemK-like protein; Region: PemK; pfam02452 498213001838 Protein of unknown function (DUF327); Region: DUF327; pfam03885 498213001839 NAD synthetase; Reviewed; Region: nadE; PRK02628 498213001840 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 498213001841 multimer interface [polypeptide binding]; other site 498213001842 active site 498213001843 catalytic triad [active] 498213001844 protein interface 1 [polypeptide binding]; other site 498213001845 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 498213001846 homodimer interface [polypeptide binding]; other site 498213001847 NAD binding pocket [chemical binding]; other site 498213001848 ATP binding pocket [chemical binding]; other site 498213001849 Mg binding site [ion binding]; other site 498213001850 active-site loop [active] 498213001851 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 498213001852 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 498213001853 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 498213001854 CAAX protease self-immunity; Region: Abi; pfam02517 498213001855 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 498213001856 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 498213001857 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 498213001858 active site 498213001859 Predicted acetyltransferase [General function prediction only]; Region: COG3981 498213001860 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 498213001861 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 498213001862 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213001863 Coenzyme A binding pocket [chemical binding]; other site 498213001864 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 498213001865 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 498213001866 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 498213001867 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 498213001868 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 498213001869 Carbon starvation protein CstA; Region: CstA; pfam02554 498213001870 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 498213001871 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 498213001872 Cache domain; Region: Cache_1; pfam02743 498213001873 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498213001874 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213001875 dimer interface [polypeptide binding]; other site 498213001876 putative CheW interface [polypeptide binding]; other site 498213001877 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 498213001878 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 498213001879 ABC transporter; Region: ABC_tran_2; pfam12848 498213001880 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 498213001881 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 498213001882 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 498213001883 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 498213001884 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 498213001885 SEC-C motif; Region: SEC-C; pfam02810 498213001886 Predicted transcriptional regulators [Transcription]; Region: COG1725 498213001887 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498213001888 DNA-binding site [nucleotide binding]; DNA binding site 498213001889 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 498213001890 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 498213001891 Walker A/P-loop; other site 498213001892 ATP binding site [chemical binding]; other site 498213001893 Q-loop/lid; other site 498213001894 ABC transporter signature motif; other site 498213001895 Walker B; other site 498213001896 D-loop; other site 498213001897 H-loop/switch region; other site 498213001898 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 498213001899 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 498213001900 Walker A/P-loop; other site 498213001901 ATP binding site [chemical binding]; other site 498213001902 Q-loop/lid; other site 498213001903 ABC transporter signature motif; other site 498213001904 Walker B; other site 498213001905 D-loop; other site 498213001906 H-loop/switch region; other site 498213001907 TOBE domain; Region: TOBE_2; pfam08402 498213001908 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 498213001909 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213001910 dimer interface [polypeptide binding]; other site 498213001911 conserved gate region; other site 498213001912 putative PBP binding loops; other site 498213001913 ABC-ATPase subunit interface; other site 498213001914 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 498213001915 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213001916 dimer interface [polypeptide binding]; other site 498213001917 conserved gate region; other site 498213001918 putative PBP binding loops; other site 498213001919 ABC-ATPase subunit interface; other site 498213001920 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 498213001921 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 498213001922 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 498213001923 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 498213001924 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213001925 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 498213001926 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 498213001927 Cupin domain; Region: Cupin_2; cl17218 498213001928 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 498213001929 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 498213001930 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human...; Region: tRNA_bindingDomain; cl00320 498213001931 putative tRNA-binding site [nucleotide binding]; other site 498213001932 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 498213001933 non-specific DNA binding site [nucleotide binding]; other site 498213001934 salt bridge; other site 498213001935 sequence-specific DNA binding site [nucleotide binding]; other site 498213001936 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 498213001937 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 498213001938 Catalytic site [active] 498213001939 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 498213001940 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 498213001941 active site 498213001942 phosphorylation site [posttranslational modification] 498213001943 intermolecular recognition site; other site 498213001944 dimerization interface [polypeptide binding]; other site 498213001945 LytTr DNA-binding domain; Region: LytTR; smart00850 498213001946 Cys-rich peptide, Clo7bot family; Region: Clo7Bot_mod_Cys; TIGR04333 498213001947 Cys-rich peptide, Clo7bot family; Region: Clo7Bot_mod_Cys; TIGR04333 498213001948 radical SAM/SPASM domain Clo7bot peptide maturase; Region: rSAM_Clo7bot; TIGR04334 498213001949 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 498213001950 FeS/SAM binding site; other site 498213001951 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 498213001952 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 498213001953 Zn binding site [ion binding]; other site 498213001954 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 498213001955 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 498213001956 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213001957 Walker A/P-loop; other site 498213001958 ATP binding site [chemical binding]; other site 498213001959 Q-loop/lid; other site 498213001960 ABC transporter signature motif; other site 498213001961 Walker B; other site 498213001962 D-loop; other site 498213001963 H-loop/switch region; other site 498213001964 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 498213001965 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 498213001966 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 498213001967 FtsX-like permease family; Region: FtsX; pfam02687 498213001968 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 498213001969 FtsX-like permease family; Region: FtsX; pfam02687 498213001970 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 498213001971 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 498213001972 Walker A/P-loop; other site 498213001973 ATP binding site [chemical binding]; other site 498213001974 Q-loop/lid; other site 498213001975 ABC transporter signature motif; other site 498213001976 Walker B; other site 498213001977 D-loop; other site 498213001978 H-loop/switch region; other site 498213001979 EDD domain protein, DegV family; Region: DegV; TIGR00762 498213001980 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 498213001981 hypothetical protein; Provisional; Region: PRK04164 498213001982 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 498213001983 EamA-like transporter family; Region: EamA; cl17759 498213001984 Sulfatase; Region: Sulfatase; pfam00884 498213001985 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 498213001986 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 498213001987 Walker A motif; other site 498213001988 ATP binding site [chemical binding]; other site 498213001989 Walker B motif; other site 498213001990 arginine finger; other site 498213001991 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 498213001992 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 498213001993 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 498213001994 Nucleoside recognition; Region: Gate; pfam07670 498213001995 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 498213001996 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 498213001997 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 498213001998 putative dimer interface [polypeptide binding]; other site 498213001999 putative anticodon binding site; other site 498213002000 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 498213002001 homodimer interface [polypeptide binding]; other site 498213002002 motif 1; other site 498213002003 motif 2; other site 498213002004 active site 498213002005 motif 3; other site 498213002006 Predicted transcriptional regulators [Transcription]; Region: COG1695 498213002007 Transcriptional regulator PadR-like family; Region: PadR; cl17335 498213002008 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 498213002009 LytTr DNA-binding domain; Region: LytTR; smart00850 498213002010 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 498213002011 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213002012 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 498213002013 CAAX protease self-immunity; Region: Abi; pfam02517 498213002014 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 498213002015 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 498213002016 non-specific DNA binding site [nucleotide binding]; other site 498213002017 salt bridge; other site 498213002018 sequence-specific DNA binding site [nucleotide binding]; other site 498213002019 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 498213002020 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 498213002021 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213002022 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 498213002023 active site 498213002024 phosphorylation site [posttranslational modification] 498213002025 intermolecular recognition site; other site 498213002026 dimerization interface [polypeptide binding]; other site 498213002027 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 498213002028 DNA binding site [nucleotide binding] 498213002029 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213002030 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 498213002031 dimerization interface [polypeptide binding]; other site 498213002032 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 498213002033 dimer interface [polypeptide binding]; other site 498213002034 phosphorylation site [posttranslational modification] 498213002035 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 498213002036 ATP binding site [chemical binding]; other site 498213002037 Mg2+ binding site [ion binding]; other site 498213002038 G-X-G motif; other site 498213002039 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 498213002040 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 498213002041 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213002042 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 498213002043 active site 498213002044 phosphorylation site [posttranslational modification] 498213002045 intermolecular recognition site; other site 498213002046 dimerization interface [polypeptide binding]; other site 498213002047 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 498213002048 DNA binding site [nucleotide binding] 498213002049 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213002050 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 498213002051 dimer interface [polypeptide binding]; other site 498213002052 phosphorylation site [posttranslational modification] 498213002053 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 498213002054 ATP binding site [chemical binding]; other site 498213002055 Mg2+ binding site [ion binding]; other site 498213002056 G-X-G motif; other site 498213002057 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 498213002058 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 498213002059 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 498213002060 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 498213002061 active site 498213002062 phosphorylation site [posttranslational modification] 498213002063 intermolecular recognition site; other site 498213002064 dimerization interface [polypeptide binding]; other site 498213002065 YcbB domain; Region: YcbB; pfam08664 498213002066 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 498213002067 ATP binding site [chemical binding]; other site 498213002068 Mg2+ binding site [ion binding]; other site 498213002069 G-X-G motif; other site 498213002070 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 498213002071 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 498213002072 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 498213002073 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 498213002074 S-adenosylmethionine binding site [chemical binding]; other site 498213002075 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 498213002076 dimerization interface [polypeptide binding]; other site 498213002077 putative Zn2+ binding site [ion binding]; other site 498213002078 putative DNA binding site [nucleotide binding]; other site 498213002079 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 498213002080 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 498213002081 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213002082 Walker A/P-loop; other site 498213002083 ATP binding site [chemical binding]; other site 498213002084 Q-loop/lid; other site 498213002085 ABC transporter signature motif; other site 498213002086 Walker B; other site 498213002087 D-loop; other site 498213002088 H-loop/switch region; other site 498213002089 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 498213002090 dimer interface [polypeptide binding]; other site 498213002091 putative tRNA-binding site [nucleotide binding]; other site 498213002092 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 498213002093 Helix-turn-helix domain; Region: HTH_18; pfam12833 498213002094 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213002095 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 498213002096 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 498213002097 non-specific DNA binding site [nucleotide binding]; other site 498213002098 salt bridge; other site 498213002099 sequence-specific DNA binding site [nucleotide binding]; other site 498213002100 Cupin domain; Region: Cupin_2; pfam07883 498213002101 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498213002102 Zn2+ binding site [ion binding]; other site 498213002103 Mg2+ binding site [ion binding]; other site 498213002104 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213002105 ABC transporter; Region: ABC_tran; pfam00005 498213002106 Q-loop/lid; other site 498213002107 ABC transporter signature motif; other site 498213002108 Walker B; other site 498213002109 D-loop; other site 498213002110 H-loop/switch region; other site 498213002111 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 498213002112 LytTr DNA-binding domain; Region: LytTR; pfam04397 498213002113 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 498213002114 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 498213002115 Walker A/P-loop; other site 498213002116 ATP binding site [chemical binding]; other site 498213002117 Q-loop/lid; other site 498213002118 ABC transporter signature motif; other site 498213002119 Walker B; other site 498213002120 D-loop; other site 498213002121 H-loop/switch region; other site 498213002122 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 498213002123 allantoate amidohydrolase; Reviewed; Region: PRK09290 498213002124 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 498213002125 active site 498213002126 metal binding site [ion binding]; metal-binding site 498213002127 dimer interface [polypeptide binding]; other site 498213002128 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 498213002129 MutS domain III; Region: MutS_III; pfam05192 498213002130 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213002131 Walker A/P-loop; other site 498213002132 ATP binding site [chemical binding]; other site 498213002133 Q-loop/lid; other site 498213002134 ABC transporter signature motif; other site 498213002135 Walker B; other site 498213002136 D-loop; other site 498213002137 H-loop/switch region; other site 498213002138 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 498213002139 Protein of unknown function (DUF454); Region: DUF454; cl01063 498213002140 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 498213002141 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 498213002142 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 498213002143 DNA binding site [nucleotide binding] 498213002144 active site 498213002145 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 498213002146 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 498213002147 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213002148 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 498213002149 endonuclease III; Region: ENDO3c; smart00478 498213002150 minor groove reading motif; other site 498213002151 helix-hairpin-helix signature motif; other site 498213002152 substrate binding pocket [chemical binding]; other site 498213002153 active site 498213002154 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 498213002155 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498213002156 DNA-binding site [nucleotide binding]; DNA binding site 498213002157 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 498213002158 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213002159 homodimer interface [polypeptide binding]; other site 498213002160 catalytic residue [active] 498213002161 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 498213002162 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 498213002163 ATP binding site [chemical binding]; other site 498213002164 Mg++ binding site [ion binding]; other site 498213002165 motif III; other site 498213002166 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 498213002167 nucleotide binding region [chemical binding]; other site 498213002168 ATP-binding site [chemical binding]; other site 498213002169 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 498213002170 diiron binding motif [ion binding]; other site 498213002171 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 498213002172 MarR family; Region: MarR_2; pfam12802 498213002173 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 498213002174 Major Facilitator Superfamily; Region: MFS_1; pfam07690 498213002175 putative substrate translocation pore; other site 498213002176 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 498213002177 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 498213002178 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213002179 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 498213002180 Walker A/P-loop; other site 498213002181 ATP binding site [chemical binding]; other site 498213002182 Q-loop/lid; other site 498213002183 ABC transporter signature motif; other site 498213002184 Walker B; other site 498213002185 D-loop; other site 498213002186 H-loop/switch region; other site 498213002187 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 498213002188 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 498213002189 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 498213002190 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 498213002191 Transcriptional regulator [Transcription]; Region: LysR; COG0583 498213002192 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 498213002193 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 498213002194 dimerization interface [polypeptide binding]; other site 498213002195 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 498213002196 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 498213002197 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 498213002198 PLD-like domain; Region: PLDc_2; pfam13091 498213002199 putative homodimer interface [polypeptide binding]; other site 498213002200 putative active site [active] 498213002201 catalytic site [active] 498213002202 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 498213002203 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 498213002204 ATP binding site [chemical binding]; other site 498213002205 putative Mg++ binding site [ion binding]; other site 498213002206 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 498213002207 nucleotide binding region [chemical binding]; other site 498213002208 ATP-binding site [chemical binding]; other site 498213002209 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 498213002210 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 498213002211 active site 498213002212 8-oxo-dGMP binding site [chemical binding]; other site 498213002213 nudix motif; other site 498213002214 metal binding site [ion binding]; metal-binding site 498213002215 Protein of unknown function (DUF3791); Region: DUF3791; pfam12668 498213002216 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 498213002217 transcriptional antiterminator BglG; Provisional; Region: PRK09772 498213002218 CAT RNA binding domain; Region: CAT_RBD; smart01061 498213002219 PRD domain; Region: PRD; pfam00874 498213002220 PRD domain; Region: PRD; pfam00874 498213002221 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 498213002222 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 498213002223 active site turn [active] 498213002224 phosphorylation site [posttranslational modification] 498213002225 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 498213002226 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 498213002227 HPr interaction site; other site 498213002228 glycerol kinase (GK) interaction site [polypeptide binding]; other site 498213002229 active site 498213002230 phosphorylation site [posttranslational modification] 498213002231 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 498213002232 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 498213002233 active site 498213002234 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 498213002235 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 498213002236 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 498213002237 ligand binding site [chemical binding]; other site 498213002238 flexible hinge region; other site 498213002239 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 498213002240 putative switch regulator; other site 498213002241 non-specific DNA interactions [nucleotide binding]; other site 498213002242 DNA binding site [nucleotide binding] 498213002243 sequence specific DNA binding site [nucleotide binding]; other site 498213002244 putative cAMP binding site [chemical binding]; other site 498213002245 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 498213002246 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 498213002247 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 498213002248 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 498213002249 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 498213002250 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 498213002251 Family of unknown function (DUF438); Region: DUF438; pfam04282 498213002252 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 498213002253 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 498213002254 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 498213002255 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 498213002256 TM-ABC transporter signature motif; other site 498213002257 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 498213002258 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213002259 Walker A/P-loop; other site 498213002260 ATP binding site [chemical binding]; other site 498213002261 Q-loop/lid; other site 498213002262 ABC transporter signature motif; other site 498213002263 Walker B; other site 498213002264 D-loop; other site 498213002265 H-loop/switch region; other site 498213002266 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 498213002267 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 498213002268 zinc binding site [ion binding]; other site 498213002269 putative ligand binding site [chemical binding]; other site 498213002270 Penicillinase repressor; Region: Pencillinase_R; pfam03965 498213002271 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 498213002272 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 498213002273 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 498213002274 FMN binding site [chemical binding]; other site 498213002275 active site 498213002276 catalytic residues [active] 498213002277 substrate binding site [chemical binding]; other site 498213002278 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 498213002279 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 498213002280 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 498213002281 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213002282 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 498213002283 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 498213002284 intersubunit interface [polypeptide binding]; other site 498213002285 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 498213002286 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 498213002287 ABC-ATPase subunit interface; other site 498213002288 dimer interface [polypeptide binding]; other site 498213002289 putative PBP binding regions; other site 498213002290 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 498213002291 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 498213002292 ABC-ATPase subunit interface; other site 498213002293 dimer interface [polypeptide binding]; other site 498213002294 putative PBP binding regions; other site 498213002295 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 498213002296 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 498213002297 Walker A/P-loop; other site 498213002298 ATP binding site [chemical binding]; other site 498213002299 Q-loop/lid; other site 498213002300 ABC transporter signature motif; other site 498213002301 Walker B; other site 498213002302 D-loop; other site 498213002303 H-loop/switch region; other site 498213002304 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 498213002305 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 498213002306 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 498213002307 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 498213002308 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 498213002309 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; cd00316 498213002310 Cache domain; Region: Cache_1; pfam02743 498213002311 HAMP domain; Region: HAMP; pfam00672 498213002312 dimerization interface [polypeptide binding]; other site 498213002313 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213002314 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498213002315 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213002316 dimer interface [polypeptide binding]; other site 498213002317 putative CheW interface [polypeptide binding]; other site 498213002318 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 498213002319 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 498213002320 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 498213002321 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 498213002322 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 498213002323 glycine cleavage system protein H; Provisional; Region: PRK13380 498213002324 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 498213002325 lipoyl attachment site [posttranslational modification]; other site 498213002326 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 498213002327 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 498213002328 tetramer interface [polypeptide binding]; other site 498213002329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213002330 catalytic residue [active] 498213002331 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 498213002332 tetramer interface [polypeptide binding]; other site 498213002333 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213002334 catalytic residue [active] 498213002335 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 498213002336 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 498213002337 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 498213002338 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 498213002339 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 498213002340 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 498213002341 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 498213002342 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 498213002343 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 498213002344 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 498213002345 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213002346 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 498213002347 active site 498213002348 phosphorylation site [posttranslational modification] 498213002349 intermolecular recognition site; other site 498213002350 dimerization interface [polypeptide binding]; other site 498213002351 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 498213002352 DNA binding site [nucleotide binding] 498213002353 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213002354 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 498213002355 dimer interface [polypeptide binding]; other site 498213002356 phosphorylation site [posttranslational modification] 498213002357 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 498213002358 ATP binding site [chemical binding]; other site 498213002359 Mg2+ binding site [ion binding]; other site 498213002360 G-X-G motif; other site 498213002361 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 498213002362 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 498213002363 Walker A/P-loop; other site 498213002364 ATP binding site [chemical binding]; other site 498213002365 Q-loop/lid; other site 498213002366 ABC transporter signature motif; other site 498213002367 Walker B; other site 498213002368 D-loop; other site 498213002369 H-loop/switch region; other site 498213002370 FtsX-like permease family; Region: FtsX; pfam02687 498213002371 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 498213002372 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 498213002373 FtsX-like permease family; Region: FtsX; pfam02687 498213002374 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 498213002375 MarR family; Region: MarR; pfam01047 498213002376 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 498213002377 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 498213002378 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 498213002379 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 498213002380 DNA binding residues [nucleotide binding] 498213002381 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 498213002382 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 498213002383 DNA binding residues [nucleotide binding] 498213002384 dimer interface [polypeptide binding]; other site 498213002385 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 498213002386 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 498213002387 active site 498213002388 myosin-cross-reactive antigen; Provisional; Region: PRK13977 498213002389 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213002390 Walker A/P-loop; other site 498213002391 ATP binding site [chemical binding]; other site 498213002392 Q-loop/lid; other site 498213002393 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 498213002394 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 498213002395 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; cl00470 498213002396 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 498213002397 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 498213002398 Walker A/P-loop; other site 498213002399 ATP binding site [chemical binding]; other site 498213002400 Q-loop/lid; other site 498213002401 ABC transporter signature motif; other site 498213002402 Walker B; other site 498213002403 D-loop; other site 498213002404 H-loop/switch region; other site 498213002405 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 498213002406 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 498213002407 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 498213002408 EamA-like transporter family; Region: EamA; pfam00892 498213002409 EamA-like transporter family; Region: EamA; pfam00892 498213002410 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 498213002411 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 498213002412 non-specific DNA binding site [nucleotide binding]; other site 498213002413 salt bridge; other site 498213002414 sequence-specific DNA binding site [nucleotide binding]; other site 498213002415 Cupin domain; Region: Cupin_2; pfam07883 498213002416 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 498213002417 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213002418 TfoX C-terminal domain; Region: TfoX_C; pfam04994 498213002419 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 498213002420 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 498213002421 active site 498213002422 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498213002423 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213002424 dimer interface [polypeptide binding]; other site 498213002425 putative CheW interface [polypeptide binding]; other site 498213002426 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 498213002427 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 498213002428 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 498213002429 ABC transporter; Region: ABC_tran_2; pfam12848 498213002430 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 498213002431 Predicted transcriptional regulator [Transcription]; Region: COG2378 498213002432 HTH domain; Region: HTH_11; pfam08279 498213002433 WYL domain; Region: WYL; pfam13280 498213002434 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 498213002435 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 498213002436 conserved cys residue [active] 498213002437 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 498213002438 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 498213002439 dimer interface [polypeptide binding]; other site 498213002440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213002441 catalytic residue [active] 498213002442 S-ribosylhomocysteinase; Provisional; Region: PRK02260 498213002443 cystathionine beta-lyase; Provisional; Region: PRK07671 498213002444 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 498213002445 homodimer interface [polypeptide binding]; other site 498213002446 substrate-cofactor binding pocket; other site 498213002447 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213002448 catalytic residue [active] 498213002449 Methyltransferase domain; Region: Methyltransf_31; pfam13847 498213002450 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 498213002451 S-adenosylmethionine binding site [chemical binding]; other site 498213002452 Protein of unknown function, DUF488; Region: DUF488; cl01246 498213002453 Glyco_18 domain; Region: Glyco_18; smart00636 498213002454 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 498213002455 active site 498213002456 Chitinase C; Region: ChiC; pfam06483 498213002457 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 498213002458 S-adenosylmethionine binding site [chemical binding]; other site 498213002459 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 498213002460 Chloramphenicol acetyltransferase; Region: CAT; pfam00302 498213002461 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 498213002462 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 498213002463 metal-binding site [ion binding] 498213002464 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 498213002465 Domain of unknown function (DUF955); Region: DUF955; pfam06114 498213002466 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 498213002467 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 498213002468 non-specific DNA binding site [nucleotide binding]; other site 498213002469 salt bridge; other site 498213002470 sequence-specific DNA binding site [nucleotide binding]; other site 498213002471 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 498213002472 non-specific DNA binding site [nucleotide binding]; other site 498213002473 salt bridge; other site 498213002474 sequence-specific DNA binding site [nucleotide binding]; other site 498213002475 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 498213002476 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 498213002477 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 498213002478 four helix bundle protein; Region: TIGR02436 498213002479 YvrJ protein family; Region: YvrJ; pfam12841 498213002480 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 498213002481 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 498213002482 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 498213002483 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 498213002484 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 498213002485 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 498213002486 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 498213002487 amidase catalytic site [active] 498213002488 Zn binding residues [ion binding]; other site 498213002489 substrate binding site [chemical binding]; other site 498213002490 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 498213002491 SIR2-like domain; Region: SIR2_2; pfam13289 498213002492 Vps54-like protein; Region: Vps54; pfam07928 498213002493 SIR2-like domain; Region: SIR2_2; pfam13289 498213002494 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 498213002495 DNA polymerase type-B family catalytic domain. DNA-directed DNA polymerases elongate DNA by adding nucleotide triphosphate (dNTP) residues to the 5'-end of the growing chain of DNA. DNA-directed DNA polymerases are multifunctional with both...; Region: POLBc; cl10023 498213002496 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 498213002497 dimerization interface [polypeptide binding]; other site 498213002498 putative DNA binding site [nucleotide binding]; other site 498213002499 putative Zn2+ binding site [ion binding]; other site 498213002500 Methyltransferase domain; Region: Methyltransf_31; pfam13847 498213002501 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 498213002502 S-adenosylmethionine binding site [chemical binding]; other site 498213002503 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 498213002504 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213002505 Walker A/P-loop; other site 498213002506 ATP binding site [chemical binding]; other site 498213002507 Q-loop/lid; other site 498213002508 ABC transporter signature motif; other site 498213002509 Walker B; other site 498213002510 D-loop; other site 498213002511 H-loop/switch region; other site 498213002512 Thymidylate synthase; Region: Thymidylat_synt; pfam00303 498213002513 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 498213002514 dimerization interface [polypeptide binding]; other site 498213002515 active site 498213002516 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 498213002517 S-adenosylmethionine binding site [chemical binding]; other site 498213002518 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 498213002519 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 498213002520 dimer interface [polypeptide binding]; other site 498213002521 substrate binding site [chemical binding]; other site 498213002522 ATP binding site [chemical binding]; other site 498213002523 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 498213002524 Helix-turn-helix domain; Region: HTH_18; pfam12833 498213002525 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213002526 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 498213002527 Protein of unknown function (DUF4003); Region: DUF4003; pfam13170 498213002528 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 498213002529 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 498213002530 Walker A/P-loop; other site 498213002531 ATP binding site [chemical binding]; other site 498213002532 Q-loop/lid; other site 498213002533 ABC transporter signature motif; other site 498213002534 Walker B; other site 498213002535 D-loop; other site 498213002536 H-loop/switch region; other site 498213002537 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 498213002538 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 498213002539 FtsX-like permease family; Region: FtsX; pfam02687 498213002540 FtsX-like permease family; Region: FtsX; pfam02687 498213002541 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213002542 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 498213002543 active site 498213002544 phosphorylation site [posttranslational modification] 498213002545 intermolecular recognition site; other site 498213002546 dimerization interface [polypeptide binding]; other site 498213002547 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 498213002548 DNA binding site [nucleotide binding] 498213002549 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213002550 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 498213002551 dimer interface [polypeptide binding]; other site 498213002552 phosphorylation site [posttranslational modification] 498213002553 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 498213002554 ATP binding site [chemical binding]; other site 498213002555 Mg2+ binding site [ion binding]; other site 498213002556 G-X-G motif; other site 498213002557 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 498213002558 Small acid-soluble spore protein H family; Region: SspH; pfam08141 498213002559 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 498213002560 4Fe-4S binding domain; Region: Fer4; pfam00037 498213002561 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 498213002562 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 498213002563 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 498213002564 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 498213002565 dihydrodipicolinate reductase; Provisional; Region: PRK00048 498213002566 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 498213002567 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 498213002568 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 498213002569 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 498213002570 active site residue [active] 498213002571 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 498213002572 active site residue [active] 498213002573 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 498213002574 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 498213002575 Beta-lactamase; Region: Beta-lactamase; pfam00144 498213002576 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 498213002577 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 498213002578 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 498213002579 non-specific DNA binding site [nucleotide binding]; other site 498213002580 salt bridge; other site 498213002581 sequence-specific DNA binding site [nucleotide binding]; other site 498213002582 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 498213002583 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 498213002584 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 498213002585 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 498213002586 Metallo-dependent hydrolases, subgroup C 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_C; cd01309 498213002587 active site 498213002588 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 498213002589 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 498213002590 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498213002591 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213002592 dimer interface [polypeptide binding]; other site 498213002593 putative CheW interface [polypeptide binding]; other site 498213002594 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 498213002595 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 498213002596 FeoA domain; Region: FeoA; pfam04023 498213002597 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 498213002598 GTP/Mg2+ binding site [chemical binding]; other site 498213002599 G5 box; other site 498213002600 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 498213002601 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 498213002602 G1 box; other site 498213002603 G1 box; other site 498213002604 GTP/Mg2+ binding site [chemical binding]; other site 498213002605 Switch I region; other site 498213002606 G2 box; other site 498213002607 G3 box; other site 498213002608 Switch II region; other site 498213002609 G4 box; other site 498213002610 G5 box; other site 498213002611 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 498213002612 Nucleoside recognition; Region: Gate; pfam07670 498213002613 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 498213002614 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 498213002615 catalytic core [active] 498213002616 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 498213002617 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 498213002618 VanW like protein; Region: VanW; pfam04294 498213002619 G5 domain; Region: G5; pfam07501 498213002620 cobalamin synthase; Reviewed; Region: cobS; PRK00235 498213002621 AIR synthase related protein, N-terminal domain; Region: AIRS; pfam00586 498213002622 Coat F domain; Region: Coat_F; pfam07875 498213002623 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 498213002624 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 498213002625 NodB motif; other site 498213002626 putative active site [active] 498213002627 putative catalytic site [active] 498213002628 putative Zn binding site [ion binding]; other site 498213002629 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 498213002630 active site 498213002631 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 498213002632 dihydropteroate synthase; Region: DHPS; TIGR01496 498213002633 substrate binding pocket [chemical binding]; other site 498213002634 dimer interface [polypeptide binding]; other site 498213002635 inhibitor binding site; inhibition site 498213002636 Dihydroxyacetone kinase family; Region: Dak1_2; pfam13684 498213002637 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 498213002638 catalytic center binding site [active] 498213002639 ATP binding site [chemical binding]; other site 498213002640 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 498213002641 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 498213002642 putative dimer interface [polypeptide binding]; other site 498213002643 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 498213002644 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 498213002645 DNA binding residues [nucleotide binding] 498213002646 dimer interface [polypeptide binding]; other site 498213002647 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 498213002648 S-adenosylmethionine binding site [chemical binding]; other site 498213002649 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 498213002650 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 498213002651 inhibitor-cofactor binding pocket; inhibition site 498213002652 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213002653 catalytic residue [active] 498213002654 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 498213002655 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 498213002656 inhibitor-cofactor binding pocket; inhibition site 498213002657 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213002658 catalytic residue [active] 498213002659 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 498213002660 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498213002661 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 498213002662 DNA binding residues [nucleotide binding] 498213002663 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 498213002664 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 498213002665 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 498213002666 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 498213002667 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 498213002668 Uncharacterized conserved protein [Function unknown]; Region: COG2128 498213002669 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 498213002670 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 498213002671 putative DNA binding site [nucleotide binding]; other site 498213002672 putative Zn2+ binding site [ion binding]; other site 498213002673 AsnC family; Region: AsnC_trans_reg; pfam01037 498213002674 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 498213002675 dinuclear metal binding motif [ion binding]; other site 498213002676 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 498213002677 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 498213002678 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 498213002679 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 498213002680 Walker A/P-loop; other site 498213002681 ATP binding site [chemical binding]; other site 498213002682 Q-loop/lid; other site 498213002683 ABC transporter signature motif; other site 498213002684 Walker B; other site 498213002685 D-loop; other site 498213002686 H-loop/switch region; other site 498213002687 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 498213002688 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 498213002689 non-specific DNA binding site [nucleotide binding]; other site 498213002690 salt bridge; other site 498213002691 sequence-specific DNA binding site [nucleotide binding]; other site 498213002692 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 498213002693 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 498213002694 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 498213002695 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 498213002696 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 498213002697 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 498213002698 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 498213002699 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 498213002700 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 498213002701 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 498213002702 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 498213002703 dimerization interface [polypeptide binding]; other site 498213002704 putative DNA binding site [nucleotide binding]; other site 498213002705 putative Zn2+ binding site [ion binding]; other site 498213002706 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 498213002707 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 498213002708 DNA binding residues [nucleotide binding] 498213002709 dimer interface [polypeptide binding]; other site 498213002710 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213002711 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 498213002712 Coenzyme A binding pocket [chemical binding]; other site 498213002713 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 498213002714 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213002715 Coenzyme A binding pocket [chemical binding]; other site 498213002716 Pirin-related protein [General function prediction only]; Region: COG1741 498213002717 Pirin; Region: Pirin; pfam02678 498213002718 Predicted transcriptional regulators [Transcription]; Region: COG1733 498213002719 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 498213002720 Nitroreductase-like family 1. 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_1; cd02137 498213002721 dimer interface [polypeptide binding]; other site 498213002722 FMN binding site [chemical binding]; other site 498213002723 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 498213002724 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 498213002725 Cupin; Region: Cupin_1; smart00835 498213002726 Cupin; Region: Cupin_1; smart00835 498213002727 TIGR00730 family protein; Region: TIGR00730 498213002728 Protein of unknown function, DUF606; Region: DUF606; pfam04657 498213002729 Transcriptional regulator [Transcription]; Region: LysR; COG0583 498213002730 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 498213002731 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 498213002732 dimerization interface [polypeptide binding]; other site 498213002733 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 498213002734 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213002735 Coenzyme A binding pocket [chemical binding]; other site 498213002736 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 498213002737 Protein of unknown function, DUF606; Region: DUF606; pfam04657 498213002738 Protein of unknown function, DUF606; Region: DUF606; pfam04657 498213002739 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 498213002740 ligand binding site [chemical binding]; other site 498213002741 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 498213002742 Predicted transcriptional regulator [Transcription]; Region: COG2378 498213002743 HTH domain; Region: HTH_11; pfam08279 498213002744 WYL domain; Region: WYL; pfam13280 498213002745 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 498213002746 Uncharacterized conserved protein [Function unknown]; Region: COG2966 498213002747 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 498213002748 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 498213002749 active site 498213002750 catalytic residues [active] 498213002751 metal binding site [ion binding]; metal-binding site 498213002752 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 498213002753 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498213002754 DNA-binding site [nucleotide binding]; DNA binding site 498213002755 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 498213002756 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213002757 homodimer interface [polypeptide binding]; other site 498213002758 catalytic residue [active] 498213002759 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 498213002760 putative FMN binding site [chemical binding]; other site 498213002761 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 498213002762 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 498213002763 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213002764 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 498213002765 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213002766 transcriptional antiterminator BglG; Provisional; Region: PRK09772 498213002767 CAT RNA binding domain; Region: CAT_RBD; smart01061 498213002768 PRD domain; Region: PRD; pfam00874 498213002769 PRD domain; Region: PRD; pfam00874 498213002770 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 498213002771 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 498213002772 active site turn [active] 498213002773 phosphorylation site [posttranslational modification] 498213002774 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 498213002775 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 498213002776 HPr interaction site; other site 498213002777 glycerol kinase (GK) interaction site [polypeptide binding]; other site 498213002778 active site 498213002779 phosphorylation site [posttranslational modification] 498213002780 beta-galactosidase; Region: BGL; TIGR03356 498213002781 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 498213002782 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 498213002783 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 498213002784 Mg++ binding site [ion binding]; other site 498213002785 putative catalytic motif [active] 498213002786 putative substrate binding site [chemical binding]; other site 498213002787 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 498213002788 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 498213002789 non-specific DNA binding site [nucleotide binding]; other site 498213002790 sequence-specific DNA binding site [nucleotide binding]; other site 498213002791 salt bridge; other site 498213002792 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 498213002793 Methyltransferase domain; Region: Methyltransf_31; pfam13847 498213002794 S-adenosylmethionine binding site [chemical binding]; other site 498213002795 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 498213002796 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 498213002797 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 498213002798 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 498213002799 FeS/SAM binding site; other site 498213002800 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 498213002801 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 498213002802 DNA binding residues [nucleotide binding] 498213002803 dimer interface [polypeptide binding]; other site 498213002804 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutL; COG4816 498213002805 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 498213002806 putative hexamer interface [polypeptide binding]; other site 498213002807 putative hexagonal pore; other site 498213002808 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 498213002809 putative hexamer interface [polypeptide binding]; other site 498213002810 putative hexagonal pore; other site 498213002811 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 498213002812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 498213002813 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 498213002814 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 498213002815 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 498213002816 tetramer interface [polypeptide binding]; other site 498213002817 active site 498213002818 Mg2+/Mn2+ binding site [ion binding]; other site 498213002819 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 498213002820 dimerization interface [polypeptide binding]; other site 498213002821 putative DNA binding site [nucleotide binding]; other site 498213002822 putative Zn2+ binding site [ion binding]; other site 498213002823 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 498213002824 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 498213002825 Predicted membrane protein [Function unknown]; Region: COG2510 498213002826 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 498213002827 Predicted membrane protein [Function unknown]; Region: COG2510 498213002828 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 498213002829 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 498213002830 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 498213002831 YmaF family; Region: YmaF; pfam12788 498213002832 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 498213002833 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 498213002834 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 498213002835 Amino acid permease; Region: AA_permease_2; pfam13520 498213002836 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 498213002837 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 498213002838 Walker A/P-loop; other site 498213002839 ATP binding site [chemical binding]; other site 498213002840 Q-loop/lid; other site 498213002841 ABC transporter signature motif; other site 498213002842 Walker B; other site 498213002843 D-loop; other site 498213002844 H-loop/switch region; other site 498213002845 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 498213002846 FtsX-like permease family; Region: FtsX; pfam02687 498213002847 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213002848 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 498213002849 active site 498213002850 phosphorylation site [posttranslational modification] 498213002851 intermolecular recognition site; other site 498213002852 dimerization interface [polypeptide binding]; other site 498213002853 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 498213002854 DNA binding site [nucleotide binding] 498213002855 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213002856 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 498213002857 dimerization interface [polypeptide binding]; other site 498213002858 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 498213002859 dimer interface [polypeptide binding]; other site 498213002860 phosphorylation site [posttranslational modification] 498213002861 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 498213002862 ATP binding site [chemical binding]; other site 498213002863 Mg2+ binding site [ion binding]; other site 498213002864 G-X-G motif; other site 498213002865 BioY family; Region: BioY; pfam02632 498213002866 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 498213002867 Sel1-like repeats; Region: SEL1; smart00671 498213002868 Sel1-like repeats; Region: SEL1; smart00671 498213002869 Sel1-like repeats; Region: SEL1; smart00671 498213002870 Sel1-like repeats; Region: SEL1; smart00671 498213002871 putative acetyltransferase YhhY; Provisional; Region: PRK10140 498213002872 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213002873 Coenzyme A binding pocket [chemical binding]; other site 498213002874 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 498213002875 Catalytic site [active] 498213002876 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 498213002877 homotrimer interface [polypeptide binding]; other site 498213002878 Walker A motif; other site 498213002879 GTP binding site [chemical binding]; other site 498213002880 Walker B motif; other site 498213002881 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 498213002882 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 498213002883 DNA binding residues [nucleotide binding] 498213002884 dimer interface [polypeptide binding]; other site 498213002885 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 498213002886 cobyric acid synthase; Provisional; Region: PRK00784 498213002887 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 498213002888 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 498213002889 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 498213002890 catalytic triad [active] 498213002891 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 498213002892 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 498213002893 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 498213002894 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213002895 homodimer interface [polypeptide binding]; other site 498213002896 catalytic residue [active] 498213002897 cobalt transport protein CbiM; Validated; Region: PRK08319 498213002898 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 498213002899 cobalt transport protein CbiN; Provisional; Region: PRK02898 498213002900 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 498213002901 precorrin-2 dehydrogenase; Provisional; Region: PRK05562 498213002902 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 498213002903 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 498213002904 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 498213002905 domain interfaces; other site 498213002906 active site 498213002907 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 498213002908 active site 498213002909 SAM binding site [chemical binding]; other site 498213002910 homodimer interface [polypeptide binding]; other site 498213002911 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 498213002912 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 498213002913 active site 498213002914 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 498213002915 dimer interface [polypeptide binding]; other site 498213002916 active site 498213002917 Schiff base residues; other site 498213002918 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 498213002919 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 498213002920 catalytic triad [active] 498213002921 precorrin-8X methylmutase; Validated; Region: cbiC; PRK05575 498213002922 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 498213002923 CAAX protease self-immunity; Region: Abi; pfam02517 498213002924 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 498213002925 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 498213002926 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 498213002927 Predicted ATPase [General function prediction only]; Region: COG3910 498213002928 ATP-binding cassette domain of non-transporter proteins; Region: ABC_Class2; cd03227 498213002929 Walker A/P-loop; other site 498213002930 ATP binding site [chemical binding]; other site 498213002931 Q-loop/lid; other site 498213002932 ABC transporter signature motif; other site 498213002933 Walker B; other site 498213002934 D-loop; other site 498213002935 H-loop/switch region; other site 498213002936 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213002937 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 498213002938 Coenzyme A binding pocket [chemical binding]; other site 498213002939 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 498213002940 FMN binding site [chemical binding]; other site 498213002941 dimer interface [polypeptide binding]; other site 498213002942 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 498213002943 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 498213002944 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 498213002945 active site 498213002946 putative homodimer interface [polypeptide binding]; other site 498213002947 SAM binding site [chemical binding]; other site 498213002948 SdpI/YhfL protein family; Region: SdpI; pfam13630 498213002949 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 498213002950 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 498213002951 S-adenosylmethionine binding site [chemical binding]; other site 498213002952 hypothetical protein; Provisional; Region: PRK06771 498213002953 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 498213002954 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213002955 Coenzyme A binding pocket [chemical binding]; other site 498213002956 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 498213002957 active site 498213002958 SAM binding site [chemical binding]; other site 498213002959 homodimer interface [polypeptide binding]; other site 498213002960 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 498213002961 active site 498213002962 SAM binding site [chemical binding]; other site 498213002963 homodimer interface [polypeptide binding]; other site 498213002964 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 498213002965 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 498213002966 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 498213002967 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 498213002968 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 498213002969 active site 498213002970 SAM binding site [chemical binding]; other site 498213002971 homodimer interface [polypeptide binding]; other site 498213002972 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 498213002973 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 498213002974 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 498213002975 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 498213002976 active site 498213002977 C-terminal domain interface [polypeptide binding]; other site 498213002978 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 498213002979 active site 498213002980 N-terminal domain interface [polypeptide binding]; other site 498213002981 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 498213002982 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 498213002983 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 498213002984 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 498213002985 homodimer interface [polypeptide binding]; other site 498213002986 Walker A motif; other site 498213002987 ATP binding site [chemical binding]; other site 498213002988 hydroxycobalamin binding site [chemical binding]; other site 498213002989 Walker B motif; other site 498213002990 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 498213002991 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 498213002992 ligand binding site [chemical binding]; other site 498213002993 flexible hinge region; other site 498213002994 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 498213002995 putative switch regulator; other site 498213002996 non-specific DNA interactions [nucleotide binding]; other site 498213002997 DNA binding site [nucleotide binding] 498213002998 sequence specific DNA binding site [nucleotide binding]; other site 498213002999 putative cAMP binding site [chemical binding]; other site 498213003000 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 498213003001 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 498213003002 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 498213003003 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 498213003004 FAD binding pocket [chemical binding]; other site 498213003005 FAD binding motif [chemical binding]; other site 498213003006 phosphate binding motif [ion binding]; other site 498213003007 beta-alpha-beta structure motif; other site 498213003008 NAD binding pocket [chemical binding]; other site 498213003009 Iron coordination center [ion binding]; other site 498213003010 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 498213003011 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 498213003012 4Fe-4S binding domain; Region: Fer4; pfam00037 498213003013 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 498213003014 putative MPT binding site; other site 498213003015 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 498213003016 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 498213003017 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 498213003018 Walker A/P-loop; other site 498213003019 ATP binding site [chemical binding]; other site 498213003020 Q-loop/lid; other site 498213003021 ABC transporter signature motif; other site 498213003022 Walker B; other site 498213003023 D-loop; other site 498213003024 H-loop/switch region; other site 498213003025 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 498213003026 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213003027 active site 498213003028 phosphorylation site [posttranslational modification] 498213003029 intermolecular recognition site; other site 498213003030 dimerization interface [polypeptide binding]; other site 498213003031 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 498213003032 DNA binding site [nucleotide binding] 498213003033 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213003034 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 498213003035 dimer interface [polypeptide binding]; other site 498213003036 phosphorylation site [posttranslational modification] 498213003037 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 498213003038 ATP binding site [chemical binding]; other site 498213003039 G-X-G motif; other site 498213003040 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 498213003041 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 498213003042 Walker A/P-loop; other site 498213003043 ATP binding site [chemical binding]; other site 498213003044 Q-loop/lid; other site 498213003045 ABC transporter signature motif; other site 498213003046 Walker B; other site 498213003047 D-loop; other site 498213003048 H-loop/switch region; other site 498213003049 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 498213003050 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 498213003051 ABC-ATPase subunit interface; other site 498213003052 dimer interface [polypeptide binding]; other site 498213003053 putative PBP binding regions; other site 498213003054 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 498213003055 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 498213003056 putative ligand binding residues [chemical binding]; other site 498213003057 dihydroxyacetone kinase; Provisional; Region: PRK14479 498213003058 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 498213003059 DAK2 domain; Region: Dak2; pfam02734 498213003060 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 498213003061 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 498213003062 dimer interface [polypeptide binding]; other site 498213003063 active site 498213003064 metal binding site [ion binding]; metal-binding site 498213003065 Sensory domain found in PocR; Region: PocR; pfam10114 498213003066 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 498213003067 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213003068 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 498213003069 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213003070 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 498213003071 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213003072 Coenzyme A binding pocket [chemical binding]; other site 498213003073 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213003074 Coenzyme A binding pocket [chemical binding]; other site 498213003075 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 498213003076 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 498213003077 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 498213003078 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 498213003079 active site 498213003080 catalytic tetrad [active] 498213003081 TfoX N-terminal domain; Region: TfoX_N; pfam04993 498213003082 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 498213003083 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 498213003084 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213003085 Coenzyme A binding pocket [chemical binding]; other site 498213003086 Predicted transcriptional regulators [Transcription]; Region: COG1695 498213003087 Transcriptional regulator PadR-like family; Region: PadR; cl17335 498213003088 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 498213003089 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 498213003090 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 498213003091 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 498213003092 active site 498213003093 purine riboside binding site [chemical binding]; other site 498213003094 Predicted membrane protein [Function unknown]; Region: COG1511 498213003095 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 498213003096 Predicted membrane protein [Function unknown]; Region: COG1511 498213003097 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 498213003098 Predicted membrane protein [Function unknown]; Region: COG1511 498213003099 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 498213003100 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 498213003101 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 498213003102 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 498213003103 ATP binding site [chemical binding]; other site 498213003104 putative Mg++ binding site [ion binding]; other site 498213003105 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 498213003106 nucleotide binding region [chemical binding]; other site 498213003107 ATP-binding site [chemical binding]; other site 498213003108 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 498213003109 HRDC domain; Region: HRDC; pfam00570 498213003110 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 498213003111 Rubrerythrin [Energy production and conversion]; Region: COG1592 498213003112 diiron binding motif [ion binding]; other site 498213003113 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 498213003114 active site 498213003115 metal binding site [ion binding]; metal-binding site 498213003116 homotetramer interface [polypeptide binding]; other site 498213003117 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 498213003118 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 498213003119 active site 498213003120 phosphorylation site [posttranslational modification] 498213003121 intermolecular recognition site; other site 498213003122 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 498213003123 TPR repeat; Region: TPR_11; pfam13414 498213003124 TPR motif; other site 498213003125 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 498213003126 Protein of unknown function (DUF2997); Region: DUF2997; pfam11211 498213003127 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 498213003128 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 498213003129 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 498213003130 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 498213003131 FeS/SAM binding site; other site 498213003132 Ycf46; Provisional; Region: ycf46; CHL00195 498213003133 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 498213003134 Walker A motif; other site 498213003135 ATP binding site [chemical binding]; other site 498213003136 Walker B motif; other site 498213003137 arginine finger; other site 498213003138 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 498213003139 L-lactate permease; Region: Lactate_perm; cl00701 498213003140 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 498213003141 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 498213003142 Ligand binding site [chemical binding]; other site 498213003143 Electron transfer flavoprotein domain; Region: ETF; pfam01012 498213003144 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 498213003145 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 498213003146 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 498213003147 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 498213003148 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 498213003149 FAD binding domain; Region: FAD_binding_4; pfam01565 498213003150 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 498213003151 Putative cyclase; Region: Cyclase; pfam04199 498213003152 aspartate aminotransferase; Provisional; Region: PRK06836 498213003153 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 498213003154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213003155 homodimer interface [polypeptide binding]; other site 498213003156 catalytic residue [active] 498213003157 Putative cyclase; Region: Cyclase; pfam04199 498213003158 Putative cyclase; Region: Cyclase; cl00814 498213003159 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 498213003160 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 498213003161 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 498213003162 DNA binding residues [nucleotide binding] 498213003163 drug binding residues [chemical binding]; other site 498213003164 dimer interface [polypeptide binding]; other site 498213003165 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]; Region: COG4978 498213003166 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 498213003167 B3/4 domain; Region: B3_4; pfam03483 498213003168 aspartyl-tRNA synthetase; Provisional; Region: aspC; PRK05159 498213003169 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 498213003170 Dimer interface [polypeptide binding]; other site 498213003171 anticodon binding site; other site 498213003172 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 498213003173 homodimer interface [polypeptide binding]; other site 498213003174 motif 1; other site 498213003175 motif 2; other site 498213003176 active site 498213003177 motif 3; other site 498213003178 flavodoxin; Provisional; Region: PRK06242 498213003179 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 498213003180 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 498213003181 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 498213003182 WHG domain; Region: WHG; pfam13305 498213003183 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 498213003184 dUMP phosphatase; Provisional; Region: PRK09449 498213003185 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 498213003186 motif II; other site 498213003187 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 498213003188 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 498213003189 ligand binding site [chemical binding]; other site 498213003190 flexible hinge region; other site 498213003191 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 498213003192 putative switch regulator; other site 498213003193 DNA binding site [nucleotide binding] 498213003194 sequence specific DNA binding site [nucleotide binding]; other site 498213003195 putative cAMP binding site [chemical binding]; other site 498213003196 DJ-1 family protein; Region: not_thiJ; TIGR01383 498213003197 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 498213003198 conserved cys residue [active] 498213003199 Transcriptional regulator [Transcription]; Region: LysR; COG0583 498213003200 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 498213003201 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 498213003202 dimerization interface [polypeptide binding]; other site 498213003203 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 498213003204 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498213003205 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 498213003206 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 498213003207 YoaP-like; Region: YoaP; pfam14268 498213003208 FeoA domain; Region: FeoA; pfam04023 498213003209 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 498213003210 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 498213003211 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 498213003212 G1 box; other site 498213003213 GTP/Mg2+ binding site [chemical binding]; other site 498213003214 Switch I region; other site 498213003215 G2 box; other site 498213003216 G3 box; other site 498213003217 Switch II region; other site 498213003218 G4 box; other site 498213003219 G5 box; other site 498213003220 Nucleoside recognition; Region: Gate; pfam07670 498213003221 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 498213003222 Nucleoside recognition; Region: Gate; pfam07670 498213003223 Predicted membrane protein [Function unknown]; Region: COG2323 498213003224 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 498213003225 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213003226 Coenzyme A binding pocket [chemical binding]; other site 498213003227 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 498213003228 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 498213003229 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830 498213003230 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 498213003231 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 498213003232 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 498213003233 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 498213003234 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; cl00279 498213003235 active site 498213003236 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213003237 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 498213003238 active site 498213003239 phosphorylation site [posttranslational modification] 498213003240 intermolecular recognition site; other site 498213003241 dimerization interface [polypeptide binding]; other site 498213003242 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 498213003243 DNA binding site [nucleotide binding] 498213003244 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 498213003245 dimer interface [polypeptide binding]; other site 498213003246 phosphorylation site [posttranslational modification] 498213003247 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 498213003248 ATP binding site [chemical binding]; other site 498213003249 Mg2+ binding site [ion binding]; other site 498213003250 G-X-G motif; other site 498213003251 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 498213003252 Cytochrome P450; Region: p450; cl12078 498213003253 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 498213003254 metal-binding site [ion binding] 498213003255 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 498213003256 Family description; Region: DsbD_2; pfam13386 498213003257 Plastocyanin domain containing protein [General function prediction only]; Region: COG4633 498213003258 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 498213003259 Predicted membrane protein [Function unknown]; Region: COG3462 498213003260 Short C-terminal domain; Region: SHOCT; pfam09851 498213003261 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213003262 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 498213003263 active site 498213003264 phosphorylation site [posttranslational modification] 498213003265 intermolecular recognition site; other site 498213003266 dimerization interface [polypeptide binding]; other site 498213003267 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 498213003268 DNA binding site [nucleotide binding] 498213003269 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213003270 HAMP domain; Region: HAMP; pfam00672 498213003271 dimerization interface [polypeptide binding]; other site 498213003272 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 498213003273 dimer interface [polypeptide binding]; other site 498213003274 phosphorylation site [posttranslational modification] 498213003275 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 498213003276 ATP binding site [chemical binding]; other site 498213003277 Mg2+ binding site [ion binding]; other site 498213003278 G-X-G motif; other site 498213003279 A new structural DNA glycosylase; Region: AlkD_like; cd06561 498213003280 active site 498213003281 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213003282 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 498213003283 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213003284 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 498213003285 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 498213003286 ABC-ATPase subunit interface; other site 498213003287 dimer interface [polypeptide binding]; other site 498213003288 putative PBP binding regions; other site 498213003289 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 498213003290 ABC-ATPase subunit interface; other site 498213003291 dimer interface [polypeptide binding]; other site 498213003292 putative PBP binding regions; other site 498213003293 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 498213003294 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 498213003295 Walker A/P-loop; other site 498213003296 ATP binding site [chemical binding]; other site 498213003297 Q-loop/lid; other site 498213003298 ABC transporter signature motif; other site 498213003299 Walker B; other site 498213003300 D-loop; other site 498213003301 H-loop/switch region; other site 498213003302 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 498213003303 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 498213003304 putative ligand binding residues [chemical binding]; other site 498213003305 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 498213003306 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213003307 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 498213003308 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 498213003309 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213003310 Walker A/P-loop; other site 498213003311 ATP binding site [chemical binding]; other site 498213003312 Q-loop/lid; other site 498213003313 ABC transporter signature motif; other site 498213003314 Walker B; other site 498213003315 D-loop; other site 498213003316 H-loop/switch region; other site 498213003317 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 498213003318 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 498213003319 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 498213003320 Walker A/P-loop; other site 498213003321 ATP binding site [chemical binding]; other site 498213003322 Q-loop/lid; other site 498213003323 ABC transporter signature motif; other site 498213003324 Walker B; other site 498213003325 D-loop; other site 498213003326 H-loop/switch region; other site 498213003327 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 498213003328 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 498213003329 ATP binding site [chemical binding]; other site 498213003330 Mg2+ binding site [ion binding]; other site 498213003331 G-X-G motif; other site 498213003332 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 498213003333 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 498213003334 active site 498213003335 phosphorylation site [posttranslational modification] 498213003336 intermolecular recognition site; other site 498213003337 dimerization interface [polypeptide binding]; other site 498213003338 LytTr DNA-binding domain; Region: LytTR; smart00850 498213003339 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 498213003340 conserved repeat domain; Region: B_ant_repeat; TIGR01451 498213003341 Domain of unknown function DUF11; Region: DUF11; pfam01345 498213003342 Domain of unknown function DUF11; Region: DUF11; cl17728 498213003343 Domain of unknown function DUF11; Region: DUF11; pfam01345 498213003344 Domain of unknown function DUF11; Region: DUF11; pfam01345 498213003345 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 498213003346 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 498213003347 putative active site [active] 498213003348 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 498213003349 Interdomain contacts; other site 498213003350 Cytokine receptor motif; other site 498213003351 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 498213003352 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 498213003353 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 498213003354 catalytic residues [active] 498213003355 Predicted membrane protein [Function unknown]; Region: COG4129 498213003356 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 498213003357 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 498213003358 Predicted Ser/Thr protein kinase [Signal transduction mechanisms]; Region: COG2112 498213003359 CAAX protease self-immunity; Region: Abi; pfam02517 498213003360 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 498213003361 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 498213003362 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213003363 Walker A/P-loop; other site 498213003364 ATP binding site [chemical binding]; other site 498213003365 Q-loop/lid; other site 498213003366 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 498213003367 ABC transporter signature motif; other site 498213003368 Walker B; other site 498213003369 ABC transporter; Region: ABC_tran_2; pfam12848 498213003370 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 498213003371 Nucleoside recognition; Region: Gate; pfam07670 498213003372 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 498213003373 ArsC family; Region: ArsC; pfam03960 498213003374 catalytic residue [active] 498213003375 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 498213003376 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 498213003377 FeS/SAM binding site; other site 498213003378 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 498213003379 Predicted dehydrogenase [General function prediction only]; Region: COG0579 498213003380 hydroxyglutarate oxidase; Provisional; Region: PRK11728 498213003381 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 498213003382 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 498213003383 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 498213003384 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; cd00368 498213003385 Protein of unknown function (DUF1667); Region: DUF1667; pfam07892 498213003386 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 498213003387 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 498213003388 putative substrate translocation pore; other site 498213003389 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 498213003390 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 498213003391 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 498213003392 active site 498213003393 HIGH motif; other site 498213003394 KMSK motif region; other site 498213003395 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 498213003396 tRNA binding surface [nucleotide binding]; other site 498213003397 anticodon binding site; other site 498213003398 transaminase; Validated; Region: PRK07324 498213003399 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 498213003400 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213003401 homodimer interface [polypeptide binding]; other site 498213003402 catalytic residue [active] 498213003403 FOG: CBS domain [General function prediction only]; Region: COG0517 498213003404 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 498213003405 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 498213003406 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 498213003407 G1 box; other site 498213003408 GTP/Mg2+ binding site [chemical binding]; other site 498213003409 Switch I region; other site 498213003410 G2 box; other site 498213003411 G3 box; other site 498213003412 Switch II region; other site 498213003413 G4 box; other site 498213003414 G5 box; other site 498213003415 Nucleoside recognition; Region: Gate; pfam07670 498213003416 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 498213003417 Nucleoside recognition; Region: Gate; pfam07670 498213003418 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 498213003419 PilZ domain; Region: PilZ; pfam07238 498213003420 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 498213003421 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 498213003422 motif II; other site 498213003423 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 498213003424 active site 498213003425 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 498213003426 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 498213003427 aromatic chitin/cellulose binding site residues [chemical binding]; other site 498213003428 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 498213003429 aromatic chitin/cellulose binding site residues [chemical binding]; other site 498213003430 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213003431 Coenzyme A binding pocket [chemical binding]; other site 498213003432 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 498213003433 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 498213003434 Walker A/P-loop; other site 498213003435 ATP binding site [chemical binding]; other site 498213003436 Q-loop/lid; other site 498213003437 ABC transporter signature motif; other site 498213003438 Walker B; other site 498213003439 D-loop; other site 498213003440 H-loop/switch region; other site 498213003441 NIL domain; Region: NIL; pfam09383 498213003442 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213003443 dimer interface [polypeptide binding]; other site 498213003444 conserved gate region; other site 498213003445 ABC-ATPase subunit interface; other site 498213003446 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 498213003447 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 498213003448 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 498213003449 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 498213003450 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 498213003451 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_subfamily5; cd08019 498213003452 metal binding site [ion binding]; metal-binding site 498213003453 putative dimer interface [polypeptide binding]; other site 498213003454 RNase_H superfamily; Region: RNase_H_2; pfam13482 498213003455 Transcriptional regulators [Transcription]; Region: FadR; COG2186 498213003456 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498213003457 DNA-binding site [nucleotide binding]; DNA binding site 498213003458 FCD domain; Region: FCD; pfam07729 498213003459 Uncharacterized conserved protein [Function unknown]; Region: COG1284 498213003460 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 498213003461 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 498213003462 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 498213003463 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 498213003464 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 498213003465 active site 498213003466 HIGH motif; other site 498213003467 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 498213003468 active site 498213003469 KMSKS motif; other site 498213003470 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 498213003471 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 498213003472 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 498213003473 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 498213003474 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 498213003475 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 498213003476 Beta-Casp domain; Region: Beta-Casp; smart01027 498213003477 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 498213003478 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498213003479 Zn2+ binding site [ion binding]; other site 498213003480 Mg2+ binding site [ion binding]; other site 498213003481 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 498213003482 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 498213003483 NAD(P) binding site [chemical binding]; other site 498213003484 catalytic residues [active] 498213003485 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 498213003486 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 498213003487 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 498213003488 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 498213003489 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 498213003490 MarR family; Region: MarR_2; pfam12802 498213003491 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 498213003492 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 498213003493 Tetratricopeptide repeat; Region: TPR_12; pfam13424 498213003494 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 498213003495 hypothetical protein; Provisional; Region: PRK11622 498213003496 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 498213003497 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213003498 dimer interface [polypeptide binding]; other site 498213003499 conserved gate region; other site 498213003500 putative PBP binding loops; other site 498213003501 ABC-ATPase subunit interface; other site 498213003502 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 498213003503 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213003504 dimer interface [polypeptide binding]; other site 498213003505 conserved gate region; other site 498213003506 putative PBP binding loops; other site 498213003507 ABC-ATPase subunit interface; other site 498213003508 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 498213003509 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 498213003510 Walker A/P-loop; other site 498213003511 ATP binding site [chemical binding]; other site 498213003512 Q-loop/lid; other site 498213003513 ABC transporter signature motif; other site 498213003514 Walker B; other site 498213003515 D-loop; other site 498213003516 H-loop/switch region; other site 498213003517 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 498213003518 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 498213003519 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213003520 Coenzyme A binding pocket [chemical binding]; other site 498213003521 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 498213003522 catalytic residues [active] 498213003523 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 498213003524 maltose O-acetyltransferase; Provisional; Region: PRK10092 498213003525 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 498213003526 active site 498213003527 substrate binding site [chemical binding]; other site 498213003528 trimer interface [polypeptide binding]; other site 498213003529 CoA binding site [chemical binding]; other site 498213003530 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 498213003531 Biotin operon repressor [Transcription]; Region: BirA; COG1654 498213003532 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 498213003533 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 498213003534 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 498213003535 metal-binding site [ion binding] 498213003536 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_30; cd04643 498213003537 FOG: CBS domain [General function prediction only]; Region: COG0517 498213003538 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213003539 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 498213003540 dimer interface [polypeptide binding]; other site 498213003541 phosphorylation site [posttranslational modification] 498213003542 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 498213003543 ATP binding site [chemical binding]; other site 498213003544 Mg2+ binding site [ion binding]; other site 498213003545 G-X-G motif; other site 498213003546 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 498213003547 nucleophile elbow; other site 498213003548 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 498213003549 MgtE intracellular N domain; Region: MgtE_N; smart00924 498213003550 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 498213003551 Divalent cation transporter; Region: MgtE; pfam01769 498213003552 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 498213003553 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 498213003554 catalytic residue [active] 498213003555 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 498213003556 Phosphoglycerate dehydrogenase (PGDH) NAD-binding and catalytic domains; Region: PGDH_2; cd05303 498213003557 putative ligand binding site [chemical binding]; other site 498213003558 NAD binding site [chemical binding]; other site 498213003559 dimerization interface [polypeptide binding]; other site 498213003560 catalytic site [active] 498213003561 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 498213003562 Uncharacterized conserved protein [Function unknown]; Region: COG4198 498213003563 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 498213003564 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 498213003565 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 498213003566 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 498213003567 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 498213003568 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 498213003569 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 498213003570 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 498213003571 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 498213003572 BCCT family transporter; Region: BCCT; pfam02028 498213003573 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 498213003574 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498213003575 DNA-binding site [nucleotide binding]; DNA binding site 498213003576 TrkA-C domain; Region: TrkA_C; pfam02080 498213003577 Flavin Reductases; Region: FlaRed; cl00801 498213003578 Isochorismatase family; Region: Isochorismatase; pfam00857 498213003579 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 498213003580 catalytic triad [active] 498213003581 conserved cis-peptide bond; other site 498213003582 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 498213003583 active site residue [active] 498213003584 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 498213003585 TPR repeat; Region: TPR_11; pfam13414 498213003586 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 498213003587 binding surface 498213003588 TPR motif; other site 498213003589 TPR repeat; Region: TPR_11; pfam13414 498213003590 TPR repeat; Region: TPR_11; pfam13414 498213003591 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 498213003592 binding surface 498213003593 TPR motif; other site 498213003594 TPR repeat; Region: TPR_11; pfam13414 498213003595 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 498213003596 active site 498213003597 Protein of unknown function (DUF3867); Region: DUF3867; pfam12983 498213003598 Rhodanese Homology Domain; Region: RHOD; smart00450 498213003599 active site residue [active] 498213003600 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 498213003601 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 498213003602 active site residue [active] 498213003603 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 498213003604 active site residue [active] 498213003605 Domain of unknown function DUF20; Region: UPF0118; pfam01594 498213003606 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 498213003607 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u4; cd11541 498213003608 putative metal binding site [ion binding]; other site 498213003609 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_HprK; cl00270 498213003610 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_HprK; cl00270 498213003611 active site 498213003612 metal-binding site [ion binding] 498213003613 nucleotide-binding site [chemical binding]; other site 498213003614 nucleotide-binding site [chemical binding]; other site 498213003615 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 498213003616 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 498213003617 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 498213003618 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213003619 dimer interface [polypeptide binding]; other site 498213003620 conserved gate region; other site 498213003621 putative PBP binding loops; other site 498213003622 ABC-ATPase subunit interface; other site 498213003623 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213003624 dimer interface [polypeptide binding]; other site 498213003625 conserved gate region; other site 498213003626 putative PBP binding loops; other site 498213003627 ABC-ATPase subunit interface; other site 498213003628 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 498213003629 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213003630 Walker A/P-loop; other site 498213003631 ATP binding site [chemical binding]; other site 498213003632 Q-loop/lid; other site 498213003633 ABC transporter signature motif; other site 498213003634 Walker B; other site 498213003635 D-loop; other site 498213003636 H-loop/switch region; other site 498213003637 TOBE domain; Region: TOBE_2; pfam08402 498213003638 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 498213003639 Double zinc ribbon; Region: DZR; pfam12773 498213003640 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 498213003641 Double zinc ribbon; Region: DZR; pfam12773 498213003642 YARHG domain; Region: YARHG; pfam13308 498213003643 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 498213003644 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 498213003645 RNA binding site [nucleotide binding]; other site 498213003646 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 498213003647 RNA binding site [nucleotide binding]; other site 498213003648 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 498213003649 RNA binding site [nucleotide binding]; other site 498213003650 S1_RPS1_repeat_hs4: 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_hs4; cd05692 498213003651 RNA binding site [nucleotide binding]; other site 498213003652 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 498213003653 active site 498213003654 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 498213003655 hexamer interface [polypeptide binding]; other site 498213003656 RNA binding site [nucleotide binding]; other site 498213003657 Histidine-zinc binding site [chemical binding]; other site 498213003658 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 498213003659 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 498213003660 zinc binding site [ion binding]; other site 498213003661 putative ligand binding site [chemical binding]; other site 498213003662 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 498213003663 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 498213003664 TM-ABC transporter signature motif; other site 498213003665 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 498213003666 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213003667 Walker A/P-loop; other site 498213003668 ATP binding site [chemical binding]; other site 498213003669 Q-loop/lid; other site 498213003670 ABC transporter signature motif; other site 498213003671 Walker B; other site 498213003672 D-loop; other site 498213003673 H-loop/switch region; other site 498213003674 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 498213003675 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 498213003676 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213003677 homodimer interface [polypeptide binding]; other site 498213003678 catalytic residue [active] 498213003679 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 498213003680 EamA-like transporter family; Region: EamA; pfam00892 498213003681 EamA-like transporter family; Region: EamA; pfam00892 498213003682 putative kinase; Provisional; Region: PRK09954 498213003683 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 498213003684 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 498213003685 substrate binding site [chemical binding]; other site 498213003686 ATP binding site [chemical binding]; other site 498213003687 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 498213003688 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 498213003689 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 498213003690 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 498213003691 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 498213003692 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 498213003693 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 498213003694 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 498213003695 homodimer interface [polypeptide binding]; other site 498213003696 NADP binding site [chemical binding]; other site 498213003697 substrate binding site [chemical binding]; other site 498213003698 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 498213003699 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 498213003700 active site 498213003701 motif I; other site 498213003702 motif II; other site 498213003703 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 498213003704 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213003705 Coenzyme A binding pocket [chemical binding]; other site 498213003706 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 498213003707 ZIP Zinc transporter; Region: Zip; pfam02535 498213003708 Predicted transcriptional regulator [Transcription]; Region: COG1959 498213003709 Transcriptional regulator; Region: Rrf2; cl17282 498213003710 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 498213003711 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 498213003712 dimer interface [polypeptide binding]; other site 498213003713 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213003714 catalytic residue [active] 498213003715 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 498213003716 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213003717 dimer interface [polypeptide binding]; other site 498213003718 conserved gate region; other site 498213003719 putative PBP binding loops; other site 498213003720 ABC-ATPase subunit interface; other site 498213003721 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 498213003722 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 498213003723 substrate binding pocket [chemical binding]; other site 498213003724 membrane-bound complex binding site; other site 498213003725 hinge residues; other site 498213003726 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 498213003727 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 498213003728 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 498213003729 catalytic residue [active] 498213003730 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 498213003731 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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_I; cd01990 498213003732 Ligand Binding Site [chemical binding]; other site 498213003733 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 498213003734 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 498213003735 Ligand Binding Site [chemical binding]; other site 498213003736 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 498213003737 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 498213003738 active site 498213003739 phosphorylation site [posttranslational modification] 498213003740 intermolecular recognition site; other site 498213003741 LytTr DNA-binding domain; Region: LytTR; pfam04397 498213003742 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 498213003743 ATP binding site [chemical binding]; other site 498213003744 Mg2+ binding site [ion binding]; other site 498213003745 G-X-G motif; other site 498213003746 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 498213003747 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 498213003748 Walker A/P-loop; other site 498213003749 ATP binding site [chemical binding]; other site 498213003750 Q-loop/lid; other site 498213003751 ABC transporter signature motif; other site 498213003752 Walker B; other site 498213003753 D-loop; other site 498213003754 H-loop/switch region; other site 498213003755 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 498213003756 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 498213003757 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 498213003758 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 498213003759 active site 498213003760 catalytic site [active] 498213003761 Domain of unknown function (DUF3787); Region: DUF3787; pfam12655 498213003762 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 498213003763 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 498213003764 dimer interface [polypeptide binding]; other site 498213003765 PYR/PP interface [polypeptide binding]; other site 498213003766 TPP binding site [chemical binding]; other site 498213003767 substrate binding site [chemical binding]; other site 498213003768 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 498213003769 Domain of unknown function; Region: EKR; pfam10371 498213003770 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 498213003771 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 498213003772 TPP-binding site [chemical binding]; other site 498213003773 dimer interface [polypeptide binding]; other site 498213003774 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 498213003775 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 498213003776 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 498213003777 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 498213003778 Uncharacterized conserved protein [Function unknown]; Region: COG0397 498213003779 hypothetical protein; Validated; Region: PRK00029 498213003780 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 498213003781 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 498213003782 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 498213003783 Helix-turn-helix domain; Region: HTH_18; pfam12833 498213003784 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213003785 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 498213003786 MFS/sugar transport protein; Region: MFS_2; pfam13347 498213003787 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 498213003788 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 498213003789 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 498213003790 nucleotide binding site [chemical binding]; other site 498213003791 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 498213003792 beta-galactosidase; Region: BGL; TIGR03356 498213003793 Glycosyl hydrolase family 14; Region: Glyco_hydro_14; cl03185 498213003794 Beta-amylase, C-terminal CBM20 (carbohydrate-binding module, family 20) domain. Beta-amylase has, in addition to its C-terminal CBM20 domain, an N-terminal catalytic domain belonging to glycosyl hydrolase family 14, which hydrolyzes the alpha-1; Region: CBM20_beta_amylase; cd05809 498213003795 starch-binding site 2 [chemical binding]; other site 498213003796 starch-binding site 1 [chemical binding]; other site 498213003797 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 498213003798 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 498213003799 active site 498213003800 HIGH motif; other site 498213003801 dimer interface [polypeptide binding]; other site 498213003802 KMSKS motif; other site 498213003803 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 498213003804 RNA binding surface [nucleotide binding]; other site 498213003805 Predicted transcriptional regulators [Transcription]; Region: COG1725 498213003806 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498213003807 DNA-binding site [nucleotide binding]; DNA binding site 498213003808 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 498213003809 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 498213003810 Walker A/P-loop; other site 498213003811 ATP binding site [chemical binding]; other site 498213003812 Q-loop/lid; other site 498213003813 ABC transporter signature motif; other site 498213003814 Walker B; other site 498213003815 D-loop; other site 498213003816 H-loop/switch region; other site 498213003817 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 498213003818 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 498213003819 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 498213003820 Bacterial SH3 domain; Region: SH3_3; pfam08239 498213003821 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 498213003822 active site 498213003823 PAS domain S-box; Region: sensory_box; TIGR00229 498213003824 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 498213003825 putative active site [active] 498213003826 heme pocket [chemical binding]; other site 498213003827 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 498213003828 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 498213003829 metal binding site [ion binding]; metal-binding site 498213003830 active site 498213003831 I-site; other site 498213003832 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 498213003833 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 498213003834 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 498213003835 putative L-serine binding site [chemical binding]; other site 498213003836 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 498213003837 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 498213003838 Uncharacterized conserved protein [Function unknown]; Region: COG5663 498213003839 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 498213003840 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 498213003841 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 498213003842 active site 498213003843 dimer interface [polypeptide binding]; other site 498213003844 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 498213003845 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 498213003846 FtsX-like permease family; Region: FtsX; pfam02687 498213003847 S-layer domain [Cell envelope biogenesis, outer membrane]; Region: COG1361 498213003848 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 498213003849 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 498213003850 Walker A/P-loop; other site 498213003851 ATP binding site [chemical binding]; other site 498213003852 Q-loop/lid; other site 498213003853 ABC transporter signature motif; other site 498213003854 Walker B; other site 498213003855 D-loop; other site 498213003856 H-loop/switch region; other site 498213003857 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 498213003858 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213003859 dimer interface [polypeptide binding]; other site 498213003860 conserved gate region; other site 498213003861 putative PBP binding loops; other site 498213003862 ABC-ATPase subunit interface; other site 498213003863 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 498213003864 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213003865 dimer interface [polypeptide binding]; other site 498213003866 conserved gate region; other site 498213003867 putative PBP binding loops; other site 498213003868 ABC-ATPase subunit interface; other site 498213003869 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 498213003870 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 498213003871 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 498213003872 CotJB protein; Region: CotJB; pfam12652 498213003873 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 498213003874 dimanganese center [ion binding]; other site 498213003875 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 498213003876 Tubby C 2; Region: Tub_2; cl02043 498213003877 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 498213003878 trimer interface [polypeptide binding]; other site 498213003879 active site 498213003880 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 498213003881 small acid-soluble spore protein, H-type; Region: SASP_H; TIGR02861 498213003882 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 498213003883 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 498213003884 non-specific DNA binding site [nucleotide binding]; other site 498213003885 salt bridge; other site 498213003886 sequence-specific DNA binding site [nucleotide binding]; other site 498213003887 Cupin domain; Region: Cupin_2; pfam07883 498213003888 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 498213003889 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 498213003890 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 498213003891 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 498213003892 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 498213003893 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 498213003894 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213003895 Walker A/P-loop; other site 498213003896 ATP binding site [chemical binding]; other site 498213003897 Q-loop/lid; other site 498213003898 ABC transporter signature motif; other site 498213003899 Walker B; other site 498213003900 D-loop; other site 498213003901 H-loop/switch region; other site 498213003902 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 498213003903 amino acid carrier protein; Region: agcS; TIGR00835 498213003904 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 498213003905 sequence-specific DNA binding site [nucleotide binding]; other site 498213003906 salt bridge; other site 498213003907 Helix-turn-helix domain; Region: HTH_17; pfam12728 498213003908 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 498213003909 catalytic residues [active] 498213003910 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 498213003911 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 498213003912 tetrameric interface [polypeptide binding]; other site 498213003913 activator binding site; other site 498213003914 NADP binding site [chemical binding]; other site 498213003915 substrate binding site [chemical binding]; other site 498213003916 catalytic residues [active] 498213003917 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 498213003918 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 498213003919 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 498213003920 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 498213003921 selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family; Region: various_sel_PB; TIGR01918 498213003922 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 498213003923 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 498213003924 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 498213003925 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 498213003926 catalytic residues [active] 498213003927 Glycine reductase complex selenoprotein A; Region: GRDA; cl04705 498213003928 Glycine reductase complex selenoprotein A; Region: GRDA; cl04705 498213003929 "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 498213003930 dimer interface [polypeptide binding]; other site 498213003931 active site 498213003932 Fatty acid synthesis protein; Region: FA_synthesis; cl17261 498213003933 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 498213003934 active site 498213003935 DNA binding site [nucleotide binding] 498213003936 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 498213003937 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 498213003938 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 498213003939 Phosphotransferase enzyme family; Region: APH; pfam01636 498213003940 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 498213003941 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 498213003942 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 498213003943 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 498213003944 intersubunit interface [polypeptide binding]; other site 498213003945 active site 498213003946 Zn2+ binding site [ion binding]; other site 498213003947 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 498213003948 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 498213003949 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 498213003950 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 498213003951 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 498213003952 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 498213003953 Predicted membrane protein [Function unknown]; Region: COG2323 498213003954 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 498213003955 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 498213003956 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 498213003957 A short protein domain of unknown function; Region: IDEAL; smart00914 498213003958 PQ loop repeat; Region: PQ-loop; cl17546 498213003959 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 498213003960 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 498213003961 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 498213003962 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 498213003963 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 498213003964 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 498213003965 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 498213003966 catalytic loop [active] 498213003967 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 498213003968 iron binding site [ion binding]; other site 498213003969 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 498213003970 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 498213003971 nucleoside/Zn binding site; other site 498213003972 dimer interface [polypeptide binding]; other site 498213003973 catalytic motif [active] 498213003974 DNA topoisomerase III; Provisional; Region: PRK07726 498213003975 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 498213003976 active site 498213003977 putative interdomain interaction site [polypeptide binding]; other site 498213003978 putative metal-binding site [ion binding]; other site 498213003979 putative nucleotide binding site [chemical binding]; other site 498213003980 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 498213003981 domain I; other site 498213003982 DNA binding groove [nucleotide binding] 498213003983 phosphate binding site [ion binding]; other site 498213003984 domain II; other site 498213003985 domain III; other site 498213003986 nucleotide binding site [chemical binding]; other site 498213003987 catalytic site [active] 498213003988 domain IV; other site 498213003989 Predicted membrane protein [Function unknown]; Region: COG1971 498213003990 Domain of unknown function DUF; Region: DUF204; pfam02659 498213003991 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 498213003992 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 498213003993 active site 498213003994 intersubunit interactions; other site 498213003995 catalytic residue [active] 498213003996 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 498213003997 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 498213003998 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 498213003999 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 498213004000 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 498213004001 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 498213004002 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 498213004003 metal binding site [ion binding]; metal-binding site 498213004004 active site 498213004005 I-site; other site 498213004006 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 498213004007 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 498213004008 NodB motif; other site 498213004009 putative active site [active] 498213004010 putative catalytic site [active] 498213004011 putative Zn binding site [ion binding]; other site 498213004012 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 498213004013 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 498213004014 DXD motif; other site 498213004015 Bacterial cellulose synthase subunit; Region: BcsB; pfam03170 498213004016 Probable zinc-binding domain; Region: zf-trcl; pfam13451 498213004017 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 498213004018 Uncharacterized family 2; belongs to a superfamily containing transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_2; cd10159 498213004019 putative homodimer interface [polypeptide binding]; other site 498213004020 putative homotetramer interface [polypeptide binding]; other site 498213004021 putative allosteric switch controlling residues; other site 498213004022 putative metal binding site [ion binding]; other site 498213004023 putative homodimer-homodimer interface [polypeptide binding]; other site 498213004024 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 498213004025 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 498213004026 metal-binding site [ion binding] 498213004027 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 498213004028 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 498213004029 metal-binding site [ion binding] 498213004030 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 498213004031 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 498213004032 motif II; other site 498213004033 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 498213004034 metal-binding site [ion binding] 498213004035 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 498213004036 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 498213004037 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 498213004038 Soluble P-type ATPase [General function prediction only]; Region: COG4087 498213004039 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 498213004040 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 498213004041 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 498213004042 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 498213004043 Walker A/P-loop; other site 498213004044 ATP binding site [chemical binding]; other site 498213004045 Q-loop/lid; other site 498213004046 ABC transporter signature motif; other site 498213004047 Walker B; other site 498213004048 D-loop; other site 498213004049 H-loop/switch region; other site 498213004050 CAAX protease self-immunity; Region: Abi; pfam02517 498213004051 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 498213004052 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 498213004053 Response regulator receiver domain; Region: Response_reg; pfam00072 498213004054 active site 498213004055 phosphorylation site [posttranslational modification] 498213004056 intermolecular recognition site; other site 498213004057 dimerization interface [polypeptide binding]; other site 498213004058 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; cl17355 498213004059 FtsX-like permease family; Region: FtsX; pfam02687 498213004060 EDD domain protein, DegV family; Region: DegV; TIGR00762 498213004061 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 498213004062 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 498213004063 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 498213004064 nucleotide binding site/active site [active] 498213004065 HIT family signature motif; other site 498213004066 catalytic residue [active] 498213004067 Membrane protein of unknown function; Region: DUF360; pfam04020 498213004068 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 498213004069 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 498213004070 YibE/F-like protein; Region: YibE_F; pfam07907 498213004071 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 498213004072 TrkA-N domain; Region: TrkA_N; pfam02254 498213004073 TrkA-C domain; Region: TrkA_C; pfam02080 498213004074 TrkA-N domain; Region: TrkA_N; pfam02254 498213004075 TrkA-C domain; Region: TrkA_C; pfam02080 498213004076 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 498213004077 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 498213004078 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 498213004079 Part of AAA domain; Region: AAA_19; pfam13245 498213004080 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 498213004081 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 498213004082 active site 498213004083 catalytic site [active] 498213004084 substrate binding site [chemical binding]; other site 498213004085 Family description; Region: UvrD_C_2; pfam13538 498213004086 Predicted membrane protein [General function prediction only]; Region: COG4194 498213004087 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 498213004088 Predicted transcriptional regulators [Transcription]; Region: COG1725 498213004089 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498213004090 DNA-binding site [nucleotide binding]; DNA binding site 498213004091 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 498213004092 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 498213004093 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 498213004094 Rubrerythrin [Energy production and conversion]; Region: COG1592 498213004095 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 498213004096 binuclear metal center [ion binding]; other site 498213004097 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 498213004098 iron binding site [ion binding]; other site 498213004099 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213004100 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213004101 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213004102 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 498213004103 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 498213004104 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 498213004105 active site turn [active] 498213004106 phosphorylation site [posttranslational modification] 498213004107 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 498213004108 HPr interaction site; other site 498213004109 glycerol kinase (GK) interaction site [polypeptide binding]; other site 498213004110 active site 498213004111 phosphorylation site [posttranslational modification] 498213004112 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 498213004113 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 498213004114 catalytic residue [active] 498213004115 putative FPP diphosphate binding site; other site 498213004116 putative FPP binding hydrophobic cleft; other site 498213004117 dimer interface [polypeptide binding]; other site 498213004118 putative IPP diphosphate binding site; other site 498213004119 Rrf2 family protein; Region: rrf2_super; TIGR00738 498213004120 Transcriptional regulator; Region: Rrf2; pfam02082 498213004121 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 498213004122 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 498213004123 ACS interaction site; other site 498213004124 CODH interaction site; other site 498213004125 metal cluster binding site [ion binding]; other site 498213004126 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 498213004127 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 498213004128 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 498213004129 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 498213004130 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213004131 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 498213004132 active site 498213004133 phosphorylation site [posttranslational modification] 498213004134 intermolecular recognition site; other site 498213004135 dimerization interface [polypeptide binding]; other site 498213004136 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 498213004137 DNA binding site [nucleotide binding] 498213004138 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213004139 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 498213004140 ATP binding site [chemical binding]; other site 498213004141 Mg2+ binding site [ion binding]; other site 498213004142 G-X-G motif; other site 498213004143 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 498213004144 FtsX-like permease family; Region: FtsX; pfam02687 498213004145 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 498213004146 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 498213004147 Walker A/P-loop; other site 498213004148 ATP binding site [chemical binding]; other site 498213004149 Q-loop/lid; other site 498213004150 ABC transporter signature motif; other site 498213004151 Walker B; other site 498213004152 D-loop; other site 498213004153 H-loop/switch region; other site 498213004154 EamA-like transporter family; Region: EamA; pfam00892 498213004155 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 498213004156 EamA-like transporter family; Region: EamA; pfam00892 498213004157 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 498213004158 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 498213004159 ligand binding site [chemical binding]; other site 498213004160 flexible hinge region; other site 498213004161 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 498213004162 putative switch regulator; other site 498213004163 non-specific DNA interactions [nucleotide binding]; other site 498213004164 DNA binding site [nucleotide binding] 498213004165 sequence specific DNA binding site [nucleotide binding]; other site 498213004166 putative cAMP binding site [chemical binding]; other site 498213004167 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 498213004168 Major Facilitator Superfamily; Region: MFS_1; pfam07690 498213004169 putative substrate translocation pore; other site 498213004170 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 498213004171 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 498213004172 putative binding site residues; other site 498213004173 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 498213004174 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 498213004175 ABC-ATPase subunit interface; other site 498213004176 dimer interface [polypeptide binding]; other site 498213004177 putative PBP binding regions; other site 498213004178 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 498213004179 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 498213004180 Walker A/P-loop; other site 498213004181 ATP binding site [chemical binding]; other site 498213004182 Q-loop/lid; other site 498213004183 ABC transporter signature motif; other site 498213004184 Walker B; other site 498213004185 D-loop; other site 498213004186 H-loop/switch region; other site 498213004187 Predicted membrane protein [Function unknown]; Region: COG3601 498213004188 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 498213004189 2-epi-5-epi-valiolone synthase (EEVS); Region: EEVS; cd08199 498213004190 active site 498213004191 metal binding site [ion binding]; metal-binding site 498213004192 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 498213004193 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 498213004194 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 498213004195 Metal-binding active site; metal-binding site 498213004196 S-ribosylhomocysteinase; Provisional; Region: PRK02260 498213004197 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 498213004198 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 498213004199 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 498213004200 substrate binding site [chemical binding]; other site 498213004201 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 498213004202 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 498213004203 Transposase, Mutator family; Region: Transposase_mut; pfam00872 498213004204 Transposase, Mutator family; Region: Transposase_mut; pfam00872 498213004205 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 498213004206 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 498213004207 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 498213004208 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 498213004209 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 498213004210 putative active site [active] 498213004211 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 498213004212 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 498213004213 putative active site [active] 498213004214 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 498213004215 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 498213004216 active site turn [active] 498213004217 phosphorylation site [posttranslational modification] 498213004218 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 498213004219 Uncharacterized conserved protein [Function unknown]; Region: COG3589 498213004220 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 498213004221 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 498213004222 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 498213004223 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213004224 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 498213004225 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213004226 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 498213004227 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 498213004228 HAMP domain; Region: HAMP; pfam00672 498213004229 dimerization interface [polypeptide binding]; other site 498213004230 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213004231 dimer interface [polypeptide binding]; other site 498213004232 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 498213004233 putative CheW interface [polypeptide binding]; other site 498213004234 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 498213004235 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 498213004236 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 498213004237 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213004238 dimer interface [polypeptide binding]; other site 498213004239 conserved gate region; other site 498213004240 putative PBP binding loops; other site 498213004241 ABC-ATPase subunit interface; other site 498213004242 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 498213004243 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213004244 dimer interface [polypeptide binding]; other site 498213004245 conserved gate region; other site 498213004246 putative PBP binding loops; other site 498213004247 ABC-ATPase subunit interface; other site 498213004248 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 498213004249 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 498213004250 Walker A/P-loop; other site 498213004251 ATP binding site [chemical binding]; other site 498213004252 Q-loop/lid; other site 498213004253 ABC transporter signature motif; other site 498213004254 Walker B; other site 498213004255 D-loop; other site 498213004256 H-loop/switch region; other site 498213004257 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 498213004258 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 498213004259 Walker A/P-loop; other site 498213004260 ATP binding site [chemical binding]; other site 498213004261 Q-loop/lid; other site 498213004262 ABC transporter signature motif; other site 498213004263 Walker B; other site 498213004264 D-loop; other site 498213004265 H-loop/switch region; other site 498213004266 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 498213004267 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 498213004268 ABC-ATPase subunit interface; other site 498213004269 dimer interface [polypeptide binding]; other site 498213004270 putative PBP binding regions; other site 498213004271 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 498213004272 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 498213004273 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 498213004274 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 498213004275 intersubunit interface [polypeptide binding]; other site 498213004276 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 498213004277 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 498213004278 nucleotide binding region [chemical binding]; other site 498213004279 ATP-binding site [chemical binding]; other site 498213004280 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 498213004281 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 498213004282 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 498213004283 metal binding site [ion binding]; metal-binding site 498213004284 active site 498213004285 I-site; other site 498213004286 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 498213004287 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 498213004288 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 498213004289 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213004290 dimer interface [polypeptide binding]; other site 498213004291 conserved gate region; other site 498213004292 putative PBP binding loops; other site 498213004293 ABC-ATPase subunit interface; other site 498213004294 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 498213004295 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213004296 Walker A/P-loop; other site 498213004297 ATP binding site [chemical binding]; other site 498213004298 Q-loop/lid; other site 498213004299 ABC transporter signature motif; other site 498213004300 Walker B; other site 498213004301 D-loop; other site 498213004302 H-loop/switch region; other site 498213004303 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 498213004304 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 498213004305 metal binding site 2 [ion binding]; metal-binding site 498213004306 putative DNA binding helix; other site 498213004307 metal binding site 1 [ion binding]; metal-binding site 498213004308 dimer interface [polypeptide binding]; other site 498213004309 structural Zn2+ binding site [ion binding]; other site 498213004310 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 498213004311 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 498213004312 DNA binding residues [nucleotide binding] 498213004313 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 498213004314 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 498213004315 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 498213004316 Peptidase M14 carboxypeptidase family-like domain of Endopeptidase I; Region: M14_Endopeptidase_I; cd06229 498213004317 putative active site [active] 498213004318 Zn binding site [ion binding]; other site 498213004319 ribonuclease Z; Region: RNase_Z; TIGR02651 498213004320 L-type amino acid transporter; Region: 2A0308; TIGR00911 498213004321 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 498213004322 pentamer interface [polypeptide binding]; other site 498213004323 dodecaamer interface [polypeptide binding]; other site 498213004324 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 498213004325 Histidine kinase; Region: HisKA_3; pfam07730 498213004326 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 498213004327 ATP binding site [chemical binding]; other site 498213004328 Mg2+ binding site [ion binding]; other site 498213004329 G-X-G motif; other site 498213004330 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 498213004331 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 498213004332 active site 498213004333 phosphorylation site [posttranslational modification] 498213004334 intermolecular recognition site; other site 498213004335 dimerization interface [polypeptide binding]; other site 498213004336 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 498213004337 DNA binding residues [nucleotide binding] 498213004338 dimerization interface [polypeptide binding]; other site 498213004339 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 498213004340 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213004341 Walker A/P-loop; other site 498213004342 ATP binding site [chemical binding]; other site 498213004343 Q-loop/lid; other site 498213004344 ABC transporter signature motif; other site 498213004345 Walker B; other site 498213004346 D-loop; other site 498213004347 H-loop/switch region; other site 498213004348 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 498213004349 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 498213004350 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 498213004351 FMN binding site [chemical binding]; other site 498213004352 dimer interface [polypeptide binding]; other site 498213004353 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 498213004354 DNA-binding site [nucleotide binding]; DNA binding site 498213004355 RNA-binding motif; other site 498213004356 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 498213004357 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 498213004358 metal binding site [ion binding]; metal-binding site 498213004359 dimer interface [polypeptide binding]; other site 498213004360 Tetratricopeptide repeat; Region: TPR_12; pfam13424 498213004361 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 498213004362 dimer interface [polypeptide binding]; other site 498213004363 pyridoxal binding site [chemical binding]; other site 498213004364 ATP binding site [chemical binding]; other site 498213004365 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 498213004366 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 498213004367 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 498213004368 Walker A/P-loop; other site 498213004369 ATP binding site [chemical binding]; other site 498213004370 Q-loop/lid; other site 498213004371 ABC transporter signature motif; other site 498213004372 Walker B; other site 498213004373 D-loop; other site 498213004374 H-loop/switch region; other site 498213004375 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 498213004376 FtsX-like permease family; Region: FtsX; pfam02687 498213004377 FtsX-like permease family; Region: FtsX; pfam02687 498213004378 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213004379 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 498213004380 active site 498213004381 phosphorylation site [posttranslational modification] 498213004382 intermolecular recognition site; other site 498213004383 dimerization interface [polypeptide binding]; other site 498213004384 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 498213004385 DNA binding site [nucleotide binding] 498213004386 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213004387 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 498213004388 dimer interface [polypeptide binding]; other site 498213004389 phosphorylation site [posttranslational modification] 498213004390 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 498213004391 ATP binding site [chemical binding]; other site 498213004392 Mg2+ binding site [ion binding]; other site 498213004393 G-X-G motif; other site 498213004394 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 498213004395 Walker A/P-loop; other site 498213004396 ATP binding site [chemical binding]; other site 498213004397 ABC transporter; Region: ABC_tran; pfam00005 498213004398 Q-loop/lid; other site 498213004399 ABC transporter signature motif; other site 498213004400 Walker B; other site 498213004401 D-loop; other site 498213004402 H-loop/switch region; other site 498213004403 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 498213004404 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 498213004405 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 498213004406 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 498213004407 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 498213004408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213004409 homodimer interface [polypeptide binding]; other site 498213004410 catalytic residue [active] 498213004411 Cobalt transport protein component CbiN; Region: CbiN; cl00842 498213004412 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 498213004413 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 498213004414 substrate binding pocket [chemical binding]; other site 498213004415 membrane-bound complex binding site; other site 498213004416 hinge residues; other site 498213004417 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213004418 dimer interface [polypeptide binding]; other site 498213004419 conserved gate region; other site 498213004420 putative PBP binding loops; other site 498213004421 ABC-ATPase subunit interface; other site 498213004422 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 498213004423 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 498213004424 Walker A/P-loop; other site 498213004425 ATP binding site [chemical binding]; other site 498213004426 Q-loop/lid; other site 498213004427 ABC transporter signature motif; other site 498213004428 Walker B; other site 498213004429 D-loop; other site 498213004430 H-loop/switch region; other site 498213004431 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 498213004432 non-specific DNA binding site [nucleotide binding]; other site 498213004433 salt bridge; other site 498213004434 sequence-specific DNA binding site [nucleotide binding]; other site 498213004435 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 498213004436 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 498213004437 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 498213004438 putative active site [active] 498213004439 putative CoA binding site [chemical binding]; other site 498213004440 nudix motif; other site 498213004441 metal binding site [ion binding]; metal-binding site 498213004442 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 498213004443 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 498213004444 dimer interface [polypeptide binding]; other site 498213004445 active site 498213004446 metal binding site [ion binding]; metal-binding site 498213004447 Predicted membrane protein [Function unknown]; Region: COG1288 498213004448 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 498213004449 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 498213004450 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 498213004451 active site 498213004452 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 498213004453 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 498213004454 substrate binding pocket [chemical binding]; other site 498213004455 membrane-bound complex binding site; other site 498213004456 hinge residues; other site 498213004457 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 498213004458 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213004459 dimer interface [polypeptide binding]; other site 498213004460 conserved gate region; other site 498213004461 putative PBP binding loops; other site 498213004462 ABC-ATPase subunit interface; other site 498213004463 Protein of unknown function (DUF523); Region: DUF523; cl00733 498213004464 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 498213004465 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 498213004466 ATP binding site [chemical binding]; other site 498213004467 Family description; Region: UvrD_C_2; pfam13538 498213004468 cell division protein FtsA; Region: ftsA; TIGR01174 498213004469 Cell division protein FtsA; Region: FtsA; smart00842 498213004470 Cell division protein FtsA; Region: FtsA; pfam14450 498213004471 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 498213004472 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 498213004473 metal binding site [ion binding]; metal-binding site 498213004474 dimer interface [polypeptide binding]; other site 498213004475 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 498213004476 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 498213004477 active site 498213004478 metal binding site [ion binding]; metal-binding site 498213004479 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 498213004480 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 498213004481 RNA binding surface [nucleotide binding]; other site 498213004482 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 498213004483 active site 498213004484 stage V sporulation protein B; Region: spore_V_B; TIGR02900 498213004485 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 498213004486 stage V sporulation protein B; Region: spore_V_B; TIGR02900 498213004487 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 498213004488 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 498213004489 diiron binding motif [ion binding]; other site 498213004490 Iron-containing alcohol dehydrogenase; Region: Fe-ADH8; cd08186 498213004491 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 498213004492 putative active site [active] 498213004493 metal binding site [ion binding]; metal-binding site 498213004494 AAA domain; Region: AAA_32; pfam13654 498213004495 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 498213004496 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 498213004497 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 498213004498 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 498213004499 active site 498213004500 Zn binding site [ion binding]; other site 498213004501 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 498213004502 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 498213004503 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 498213004504 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 498213004505 active site 498213004506 Zn binding site [ion binding]; other site 498213004507 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 498213004508 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 498213004509 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 498213004510 active site 498213004511 Zn binding site [ion binding]; other site 498213004512 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 498213004513 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 498213004514 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 498213004515 active site 498213004516 Zn binding site [ion binding]; other site 498213004517 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 498213004518 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 498213004519 active site 498213004520 Zn binding site [ion binding]; other site 498213004521 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 498213004522 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 498213004523 dimerization interface [polypeptide binding]; other site 498213004524 active site 498213004525 L-aspartate oxidase; Provisional; Region: PRK06175 498213004526 FAD binding domain; Region: FAD_binding_2; pfam00890 498213004527 Quinolinate synthetase A protein; Region: NadA; pfam02445 498213004528 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 498213004529 metal binding site [ion binding]; metal-binding site 498213004530 Haemolysin-III related; Region: HlyIII; cl03831 498213004531 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 498213004532 GTP-binding protein YchF; Reviewed; Region: PRK09601 498213004533 YchF GTPase; Region: YchF; cd01900 498213004534 G1 box; other site 498213004535 GTP/Mg2+ binding site [chemical binding]; other site 498213004536 Switch I region; other site 498213004537 G2 box; other site 498213004538 Switch II region; other site 498213004539 G3 box; other site 498213004540 G4 box; other site 498213004541 G5 box; other site 498213004542 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 498213004543 cell division protein MraZ; Reviewed; Region: PRK00326 498213004544 MraZ protein; Region: MraZ; pfam02381 498213004545 MraZ protein; Region: MraZ; pfam02381 498213004546 MraW methylase family; Region: Methyltransf_5; pfam01795 498213004547 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 498213004548 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 498213004549 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 498213004550 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 498213004551 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 498213004552 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 498213004553 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 498213004554 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 498213004555 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 498213004556 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 498213004557 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 498213004558 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 498213004559 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 498213004560 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 498213004561 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 498213004562 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 498213004563 Mg++ binding site [ion binding]; other site 498213004564 putative catalytic motif [active] 498213004565 putative substrate binding site [chemical binding]; other site 498213004566 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 498213004567 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 498213004568 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 498213004569 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 498213004570 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 498213004571 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 498213004572 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 498213004573 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 498213004574 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 498213004575 catalytic residue [active] 498213004576 Protein of unknown function (DUF552); Region: DUF552; cl00775 498213004577 YGGT family; Region: YGGT; pfam02325 498213004578 photosystem II S4 domain protein; Region: PS_II_S4; TIGR03069 498213004579 DivIVA protein; Region: DivIVA; pfam05103 498213004580 DivIVA domain; Region: DivI1A_domain; TIGR03544 498213004581 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 498213004582 active site 498213004583 dimer interface [polypeptide binding]; other site 498213004584 metal binding site [ion binding]; metal-binding site 498213004585 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 498213004586 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 498213004587 3-deoxy-7-phosphoheptulonate synthase; Provisional; Region: PRK13398 498213004588 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroA; COG2876 498213004589 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 498213004590 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 498213004591 hinge; other site 498213004592 active site 498213004593 regulatory protein, yteA family; Region: bacill_yteA; TIGR02890 498213004594 lipoprotein signal peptidase; Provisional; Region: PRK14791 498213004595 lipoprotein signal peptidase; Provisional; Region: PRK14787 498213004596 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 498213004597 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 498213004598 active site 498213004599 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 498213004600 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 498213004601 active site 498213004602 uracil transporter; Provisional; Region: PRK10720 498213004603 Methanothermobacter thermautotrophicus Mth212-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Mth212-like_AP-endo; cd09085 498213004604 active site 498213004605 putative catalytic site [active] 498213004606 phosphate binding site A [ion binding]; other site 498213004607 DNA binding site [nucleotide binding] 498213004608 metal binding site A [ion binding]; metal-binding site 498213004609 putative AP binding site [nucleotide binding]; other site 498213004610 putative metal binding site B [ion binding]; other site 498213004611 phosphate binding site B [ion binding]; other site 498213004612 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 498213004613 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 498213004614 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 498213004615 Carbonic anhydrase; Region: Pro_CA; smart00947 498213004616 active site clefts [active] 498213004617 zinc binding site [ion binding]; other site 498213004618 dimer interface [polypeptide binding]; other site 498213004619 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 498213004620 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 498213004621 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213004622 dimer interface [polypeptide binding]; other site 498213004623 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 498213004624 conserved gate region; other site 498213004625 putative PBP binding loops; other site 498213004626 ABC-ATPase subunit interface; other site 498213004627 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213004628 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 498213004629 Walker A/P-loop; other site 498213004630 ATP binding site [chemical binding]; other site 498213004631 Q-loop/lid; other site 498213004632 ABC transporter signature motif; other site 498213004633 Walker B; other site 498213004634 D-loop; other site 498213004635 H-loop/switch region; other site 498213004636 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 498213004637 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 498213004638 active site 498213004639 nucleophile elbow; other site 498213004640 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 498213004641 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 498213004642 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 498213004643 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 498213004644 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 498213004645 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 498213004646 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 498213004647 Uroporphyrinogen decarboxylase (URO-D); Region: URO-D; pfam01208 498213004648 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 498213004649 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 498213004650 B12 binding site [chemical binding]; other site 498213004651 cobalt ligand [ion binding]; other site 498213004652 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 498213004653 MtaA_CmuA_like family. MtaA/CmuA, also MtsA, or methyltransferase 2 (MT2) MT2-A and MT2-M isozymes, are methylcobamide:Coenzyme M methyltransferases, which play a role in metabolic pathways of methane formation from various substrates, such as methylated...; Region: Mta_CmuA_like; cd03307 498213004654 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 498213004655 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 498213004656 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 498213004657 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 498213004658 Walker A/P-loop; other site 498213004659 ATP binding site [chemical binding]; other site 498213004660 Q-loop/lid; other site 498213004661 ABC transporter signature motif; other site 498213004662 Walker B; other site 498213004663 D-loop; other site 498213004664 H-loop/switch region; other site 498213004665 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 498213004666 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213004667 dimer interface [polypeptide binding]; other site 498213004668 conserved gate region; other site 498213004669 ABC-ATPase subunit interface; other site 498213004670 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 498213004671 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 498213004672 MORN repeat; Region: MORN; cl14787 498213004673 MORN repeat; Region: MORN; cl14787 498213004674 MORN repeat; Region: MORN; cl14787 498213004675 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 498213004676 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 498213004677 active site 498213004678 FMN binding site [chemical binding]; other site 498213004679 substrate binding site [chemical binding]; other site 498213004680 putative catalytic residue [active] 498213004681 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 498213004682 dimer interface [polypeptide binding]; other site 498213004683 active site 498213004684 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 498213004685 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 498213004686 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 498213004687 [2Fe-2S] cluster binding site [ion binding]; other site 498213004688 DNA topoisomerase III; Provisional; Region: PRK07726 498213004689 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 498213004690 active site 498213004691 putative interdomain interaction site [polypeptide binding]; other site 498213004692 putative metal-binding site [ion binding]; other site 498213004693 putative nucleotide binding site [chemical binding]; other site 498213004694 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; cl11986 498213004695 domain I; other site 498213004696 DNA binding groove [nucleotide binding] 498213004697 phosphate binding site [ion binding]; other site 498213004698 domain II; other site 498213004699 domain III; other site 498213004700 nucleotide binding site [chemical binding]; other site 498213004701 catalytic site [active] 498213004702 domain IV; other site 498213004703 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 498213004704 ATP-binding cassette domain of MutS-like homolog; Region: ABC_MutS-like; cd03283 498213004705 Walker A/P-loop; other site 498213004706 ATP binding site [chemical binding]; other site 498213004707 Q-loop/lid; other site 498213004708 ABC transporter signature motif; other site 498213004709 Walker B; other site 498213004710 D-loop; other site 498213004711 H-loop/switch region; other site 498213004712 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 498213004713 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 498213004714 active site 498213004715 catalytic tetrad [active] 498213004716 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 498213004717 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 498213004718 putative deacylase active site [active] 498213004719 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 498213004720 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 498213004721 Walker A/P-loop; other site 498213004722 ATP binding site [chemical binding]; other site 498213004723 Q-loop/lid; other site 498213004724 ABC transporter signature motif; other site 498213004725 Walker B; other site 498213004726 D-loop; other site 498213004727 H-loop/switch region; other site 498213004728 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 498213004729 FtsX-like permease family; Region: FtsX; pfam02687 498213004730 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 498213004731 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 498213004732 Protein of unknown function (DUF523); Region: DUF523; pfam04463 498213004733 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 498213004734 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 498213004735 Walker A/P-loop; other site 498213004736 ATP binding site [chemical binding]; other site 498213004737 Q-loop/lid; other site 498213004738 ABC transporter signature motif; other site 498213004739 Walker B; other site 498213004740 D-loop; other site 498213004741 H-loop/switch region; other site 498213004742 TOBE domain; Region: TOBE; pfam03459 498213004743 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 498213004744 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213004745 dimer interface [polypeptide binding]; other site 498213004746 conserved gate region; other site 498213004747 putative PBP binding loops; other site 498213004748 ABC-ATPase subunit interface; other site 498213004749 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 498213004750 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213004751 dimer interface [polypeptide binding]; other site 498213004752 conserved gate region; other site 498213004753 putative PBP binding loops; other site 498213004754 ABC-ATPase subunit interface; other site 498213004755 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 498213004756 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 498213004757 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 498213004758 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 498213004759 NAD binding site [chemical binding]; other site 498213004760 dimer interface [polypeptide binding]; other site 498213004761 substrate binding site [chemical binding]; other site 498213004762 tetramer (dimer of dimers) interface [polypeptide binding]; other site 498213004763 Transcriptional regulators [Transcription]; Region: FadR; COG2186 498213004764 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498213004765 DNA-binding site [nucleotide binding]; DNA binding site 498213004766 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 498213004767 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 498213004768 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 498213004769 gating phenylalanine in ion channel; other site 498213004770 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 498213004771 PAS domain S-box; Region: sensory_box; TIGR00229 498213004772 PAS domain; Region: PAS; smart00091 498213004773 putative active site [active] 498213004774 heme pocket [chemical binding]; other site 498213004775 PAS domain S-box; Region: sensory_box; TIGR00229 498213004776 PAS domain; Region: PAS_8; pfam13188 498213004777 putative active site [active] 498213004778 heme pocket [chemical binding]; other site 498213004779 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 498213004780 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 498213004781 metal binding site [ion binding]; metal-binding site 498213004782 active site 498213004783 I-site; other site 498213004784 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498213004785 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 498213004786 Zn2+ binding site [ion binding]; other site 498213004787 Mg2+ binding site [ion binding]; other site 498213004788 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 498213004789 dimerization interface [polypeptide binding]; other site 498213004790 Cache domain; Region: Cache_1; pfam02743 498213004791 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 498213004792 dimerization interface [polypeptide binding]; other site 498213004793 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498213004794 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213004795 dimer interface [polypeptide binding]; other site 498213004796 putative CheW interface [polypeptide binding]; other site 498213004797 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 498213004798 MarR family; Region: MarR_2; pfam12802 498213004799 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 498213004800 Predicted transcriptional regulators [Transcription]; Region: COG1733 498213004801 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 498213004802 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 498213004803 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 498213004804 active site 498213004805 metal binding site [ion binding]; metal-binding site 498213004806 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 498213004807 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 498213004808 DNA binding site [nucleotide binding] 498213004809 active site 498213004810 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; cl15424 498213004811 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213004812 Helix-turn-helix domain; Region: HTH_18; pfam12833 498213004813 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213004814 hypothetical protein; Provisional; Region: PRK02399 498213004815 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 498213004816 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 498213004817 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 498213004818 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 498213004819 non-specific DNA binding site [nucleotide binding]; other site 498213004820 salt bridge; other site 498213004821 sequence-specific DNA binding site [nucleotide binding]; other site 498213004822 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 498213004823 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 498213004824 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 498213004825 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 498213004826 Soluble P-type ATPase [General function prediction only]; Region: COG4087 498213004827 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 498213004828 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 498213004829 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 498213004830 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 498213004831 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 498213004832 putative substrate translocation pore; other site 498213004833 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 498213004834 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 498213004835 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 498213004836 HDOD domain; Region: HDOD; pfam08668 498213004837 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498213004838 Zn2+ binding site [ion binding]; other site 498213004839 Mg2+ binding site [ion binding]; other site 498213004840 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 498213004841 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 498213004842 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 498213004843 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 498213004844 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 498213004845 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 498213004846 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 498213004847 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 498213004848 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 498213004849 active site 498213004850 Protein of unknown function, DUF606; Region: DUF606; pfam04657 498213004851 Protein of unknown function, DUF606; Region: DUF606; pfam04657 498213004852 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 498213004853 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 498213004854 ligand binding site [chemical binding]; other site 498213004855 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 498213004856 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 498213004857 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213004858 Walker A/P-loop; other site 498213004859 ATP binding site [chemical binding]; other site 498213004860 Q-loop/lid; other site 498213004861 ABC transporter signature motif; other site 498213004862 Walker B; other site 498213004863 D-loop; other site 498213004864 H-loop/switch region; other site 498213004865 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 498213004866 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 498213004867 ABC-2 type transporter; Region: ABC2_membrane; cl17235 498213004868 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 498213004869 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 498213004870 AAA ATPase domain; Region: AAA_16; pfam13191 498213004871 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 498213004872 DNA binding residues [nucleotide binding] 498213004873 dimerization interface [polypeptide binding]; other site 498213004874 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 498213004875 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 498213004876 Predicted transcriptional regulator [Transcription]; Region: COG2378 498213004877 HTH domain; Region: HTH_11; pfam08279 498213004878 WYL domain; Region: WYL; pfam13280 498213004879 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 498213004880 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 498213004881 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 498213004882 active site 498213004883 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 498213004884 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 498213004885 FeS/SAM binding site; other site 498213004886 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 498213004887 active site 498213004888 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 498213004889 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 498213004890 Ligand Binding Site [chemical binding]; other site 498213004891 CAAX protease self-immunity; Region: Abi; pfam02517 498213004892 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498213004893 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213004894 dimer interface [polypeptide binding]; other site 498213004895 putative CheW interface [polypeptide binding]; other site 498213004896 Protein of unknown function (DUF975); Region: DUF975; cl10504 498213004897 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 498213004898 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 498213004899 DNA binding residues [nucleotide binding] 498213004900 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 498213004901 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 498213004902 intersubunit interface [polypeptide binding]; other site 498213004903 active site 498213004904 catalytic residue [active] 498213004905 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 498213004906 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 498213004907 substrate binding site [chemical binding]; other site 498213004908 dimer interface [polypeptide binding]; other site 498213004909 ATP binding site [chemical binding]; other site 498213004910 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 498213004911 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 498213004912 dimer interface [polypeptide binding]; other site 498213004913 motif 1; other site 498213004914 active site 498213004915 motif 2; other site 498213004916 motif 3; other site 498213004917 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 498213004918 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 498213004919 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 498213004920 histidinol dehydrogenase; Region: hisD; TIGR00069 498213004921 NAD binding site [chemical binding]; other site 498213004922 dimerization interface [polypeptide binding]; other site 498213004923 product binding site; other site 498213004924 substrate binding site [chemical binding]; other site 498213004925 zinc binding site [ion binding]; other site 498213004926 catalytic residues [active] 498213004927 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 498213004928 putative active site pocket [active] 498213004929 4-fold oligomerization interface [polypeptide binding]; other site 498213004930 metal binding residues [ion binding]; metal-binding site 498213004931 3-fold/trimer interface [polypeptide binding]; other site 498213004932 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 498213004933 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 498213004934 putative active site [active] 498213004935 oxyanion strand; other site 498213004936 catalytic triad [active] 498213004937 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 498213004938 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 498213004939 catalytic residues [active] 498213004940 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 498213004941 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 498213004942 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213004943 homodimer interface [polypeptide binding]; other site 498213004944 catalytic residue [active] 498213004945 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 498213004946 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 498213004947 substrate binding site [chemical binding]; other site 498213004948 glutamase interaction surface [polypeptide binding]; other site 498213004949 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 498213004950 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 498213004951 metal binding site [ion binding]; metal-binding site 498213004952 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 498213004953 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 498213004954 CPxP motif; other site 498213004955 putative inner membrane protein; Provisional; Region: PRK11099 498213004956 Transcriptional regulator [Transcription]; Region: LysR; COG0583 498213004957 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 498213004958 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 498213004959 dimerization interface [polypeptide binding]; other site 498213004960 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 498213004961 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 498213004962 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 498213004963 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 498213004964 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 498213004965 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 498213004966 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 498213004967 active site residue [active] 498213004968 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 498213004969 Sulphur transport; Region: Sulf_transp; pfam04143 498213004970 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 498213004971 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 498213004972 Walker A/P-loop; other site 498213004973 ATP binding site [chemical binding]; other site 498213004974 Q-loop/lid; other site 498213004975 ABC transporter signature motif; other site 498213004976 Walker B; other site 498213004977 D-loop; other site 498213004978 H-loop/switch region; other site 498213004979 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 498213004980 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 498213004981 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 498213004982 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 498213004983 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213004984 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 498213004985 active site 498213004986 phosphorylation site [posttranslational modification] 498213004987 intermolecular recognition site; other site 498213004988 dimerization interface [polypeptide binding]; other site 498213004989 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 498213004990 DNA binding site [nucleotide binding] 498213004991 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213004992 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 498213004993 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 498213004994 dimer interface [polypeptide binding]; other site 498213004995 phosphorylation site [posttranslational modification] 498213004996 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 498213004997 ATP binding site [chemical binding]; other site 498213004998 Mg2+ binding site [ion binding]; other site 498213004999 G-X-G motif; other site 498213005000 arginine deiminase; Provisional; Region: PRK01388 498213005001 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 498213005002 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 498213005003 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 498213005004 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 498213005005 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 498213005006 HD domain; Region: HD_3; pfam13023 498213005007 YmaF family; Region: YmaF; pfam12788 498213005008 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 498213005009 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 498213005010 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 498213005011 ATP binding site [chemical binding]; other site 498213005012 putative Mg++ binding site [ion binding]; other site 498213005013 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 498213005014 nucleotide binding region [chemical binding]; other site 498213005015 ATP-binding site [chemical binding]; other site 498213005016 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 498213005017 synthetase active site [active] 498213005018 NTP binding site [chemical binding]; other site 498213005019 metal binding site [ion binding]; metal-binding site 498213005020 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 498213005021 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 498213005022 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213005023 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 498213005024 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 498213005025 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213005026 Walker A/P-loop; other site 498213005027 ATP binding site [chemical binding]; other site 498213005028 Q-loop/lid; other site 498213005029 ABC transporter signature motif; other site 498213005030 Walker B; other site 498213005031 D-loop; other site 498213005032 H-loop/switch region; other site 498213005033 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 498213005034 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 498213005035 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213005036 Walker A/P-loop; other site 498213005037 ATP binding site [chemical binding]; other site 498213005038 Q-loop/lid; other site 498213005039 ABC transporter signature motif; other site 498213005040 Walker B; other site 498213005041 D-loop; other site 498213005042 H-loop/switch region; other site 498213005043 Transcriptional regulators [Transcription]; Region: PurR; COG1609 498213005044 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 498213005045 DNA binding site [nucleotide binding] 498213005046 domain linker motif; other site 498213005047 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 498213005048 putative dimerization interface [polypeptide binding]; other site 498213005049 putative ligand binding site [chemical binding]; other site 498213005050 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 498213005051 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 498213005052 nucleotide binding site [chemical binding]; other site 498213005053 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 498213005054 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 498213005055 Ca binding site [ion binding]; other site 498213005056 active site 498213005057 catalytic site [active] 498213005058 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 498213005059 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 498213005060 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 498213005061 active site turn [active] 498213005062 phosphorylation site [posttranslational modification] 498213005063 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 498213005064 putative catalytic site [active] 498213005065 putative metal binding site [ion binding]; other site 498213005066 putative phosphate binding site [ion binding]; other site 498213005067 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 498213005068 Domain of unknown function DUF; Region: DUF204; pfam02659 498213005069 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 498213005070 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 498213005071 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 498213005072 dimerization interface [polypeptide binding]; other site 498213005073 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213005074 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 498213005075 dimer interface [polypeptide binding]; other site 498213005076 phosphorylation site [posttranslational modification] 498213005077 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 498213005078 ATP binding site [chemical binding]; other site 498213005079 Mg2+ binding site [ion binding]; other site 498213005080 G-X-G motif; other site 498213005081 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213005082 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 498213005083 active site 498213005084 phosphorylation site [posttranslational modification] 498213005085 intermolecular recognition site; other site 498213005086 dimerization interface [polypeptide binding]; other site 498213005087 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 498213005088 DNA binding site [nucleotide binding] 498213005089 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 498213005090 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 498213005091 putative substrate translocation pore; other site 498213005092 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 498213005093 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 498213005094 active site 498213005095 motif I; other site 498213005096 motif II; other site 498213005097 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 498213005098 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 498213005099 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 498213005100 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 498213005101 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 498213005102 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 498213005103 DNA binding residues [nucleotide binding] 498213005104 YvrJ protein family; Region: YvrJ; pfam12841 498213005105 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 498213005106 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 498213005107 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 498213005108 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 498213005109 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 498213005110 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 498213005111 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 498213005112 FAD binding site [chemical binding]; other site 498213005113 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 498213005114 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 498213005115 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 498213005116 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 498213005117 substrate binding pocket [chemical binding]; other site 498213005118 dimer interface [polypeptide binding]; other site 498213005119 inhibitor binding site; inhibition site 498213005120 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 498213005121 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 498213005122 B12 binding site [chemical binding]; other site 498213005123 cobalt ligand [ion binding]; other site 498213005124 RNA polymerase factor sigma-70; Validated; Region: PRK06811 498213005125 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 498213005126 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 498213005127 GAF domain; Region: GAF; pfam01590 498213005128 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 498213005129 Walker A motif; other site 498213005130 ATP binding site [chemical binding]; other site 498213005131 Walker B motif; other site 498213005132 arginine finger; other site 498213005133 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 498213005134 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; cl09807 498213005135 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 498213005136 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 498213005137 tetramer interface [polypeptide binding]; other site 498213005138 TPP-binding site [chemical binding]; other site 498213005139 heterodimer interface [polypeptide binding]; other site 498213005140 phosphorylation loop region [posttranslational modification] 498213005141 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 498213005142 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 498213005143 alpha subunit interface [polypeptide binding]; other site 498213005144 TPP binding site [chemical binding]; other site 498213005145 heterodimer interface [polypeptide binding]; other site 498213005146 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 498213005147 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 498213005148 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 498213005149 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 498213005150 E3 interaction surface; other site 498213005151 lipoyl attachment site [posttranslational modification]; other site 498213005152 e3 binding domain; Region: E3_binding; pfam02817 498213005153 e3 binding domain; Region: E3_binding; pfam02817 498213005154 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 498213005155 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 498213005156 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 498213005157 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 498213005158 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 498213005159 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 498213005160 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 498213005161 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 498213005162 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 498213005163 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 498213005164 Walker A/P-loop; other site 498213005165 ATP binding site [chemical binding]; other site 498213005166 Q-loop/lid; other site 498213005167 ABC transporter signature motif; other site 498213005168 Walker B; other site 498213005169 D-loop; other site 498213005170 H-loop/switch region; other site 498213005171 FOG: CBS domain [General function prediction only]; Region: COG0517 498213005172 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 498213005173 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213005174 dimer interface [polypeptide binding]; other site 498213005175 conserved gate region; other site 498213005176 putative PBP binding loops; other site 498213005177 ABC-ATPase subunit interface; other site 498213005178 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 498213005179 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 498213005180 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 498213005181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213005182 catalytic residue [active] 498213005183 homoserine kinase; Provisional; Region: PRK01212 498213005184 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 498213005185 aspartate kinase; Reviewed; Region: PRK09034 498213005186 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 498213005187 nucleotide binding site [chemical binding]; other site 498213005188 substrate binding site [chemical binding]; other site 498213005189 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 498213005190 allosteric regulatory residue; other site 498213005191 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 498213005192 homoserine dehydrogenase; Provisional; Region: PRK06349 498213005193 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 498213005194 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 498213005195 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 498213005196 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 498213005197 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 498213005198 putative active site [active] 498213005199 heme pocket [chemical binding]; other site 498213005200 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 498213005201 Walker A motif; other site 498213005202 ATP binding site [chemical binding]; other site 498213005203 Walker B motif; other site 498213005204 arginine finger; other site 498213005205 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 498213005206 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 498213005207 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 498213005208 putative active site [active] 498213005209 metal binding site [ion binding]; metal-binding site 498213005210 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 498213005211 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 498213005212 FAD binding pocket [chemical binding]; other site 498213005213 FAD binding motif [chemical binding]; other site 498213005214 phosphate binding motif [ion binding]; other site 498213005215 beta-alpha-beta structure motif; other site 498213005216 NAD binding pocket [chemical binding]; other site 498213005217 Iron coordination center [ion binding]; other site 498213005218 putative oxidoreductase; Provisional; Region: PRK12831 498213005219 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 498213005220 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 498213005221 PAS domain; Region: PAS; smart00091 498213005222 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 498213005223 Walker A motif; other site 498213005224 ATP binding site [chemical binding]; other site 498213005225 Walker B motif; other site 498213005226 arginine finger; other site 498213005227 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 498213005228 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 498213005229 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 498213005230 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 498213005231 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 498213005232 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 498213005233 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; cl02713 498213005234 Hemerythrin-like domain; Region: Hr-like; cd12108 498213005235 Fe binding site [ion binding]; other site 498213005236 alanine racemase; Reviewed; Region: alr; PRK00053 498213005237 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 498213005238 active site 498213005239 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 498213005240 dimer interface [polypeptide binding]; other site 498213005241 substrate binding site [chemical binding]; other site 498213005242 catalytic residues [active] 498213005243 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498213005244 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213005245 dimer interface [polypeptide binding]; other site 498213005246 putative CheW interface [polypeptide binding]; other site 498213005247 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 498213005248 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 498213005249 Protein of unknown function (DUF975); Region: DUF975; cl10504 498213005250 short chain dehydrogenase; Provisional; Region: PRK06701 498213005251 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 498213005252 NAD binding site [chemical binding]; other site 498213005253 metal binding site [ion binding]; metal-binding site 498213005254 active site 498213005255 Cache domain; Region: Cache_1; pfam02743 498213005256 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498213005257 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213005258 dimer interface [polypeptide binding]; other site 498213005259 putative CheW interface [polypeptide binding]; other site 498213005260 KWG Leptospira; Region: KWG; pfam07656 498213005261 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 498213005262 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 498213005263 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 498213005264 ATP binding site [chemical binding]; other site 498213005265 putative Mg++ binding site [ion binding]; other site 498213005266 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 498213005267 nucleotide binding region [chemical binding]; other site 498213005268 ATP-binding site [chemical binding]; other site 498213005269 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 498213005270 homodimer interaction site [polypeptide binding]; other site 498213005271 cofactor binding site; other site 498213005272 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 498213005273 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 498213005274 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 498213005275 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 498213005276 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_21; cd08520 498213005277 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 498213005278 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213005279 dimer interface [polypeptide binding]; other site 498213005280 conserved gate region; other site 498213005281 putative PBP binding loops; other site 498213005282 ABC-ATPase subunit interface; other site 498213005283 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 498213005284 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213005285 dimer interface [polypeptide binding]; other site 498213005286 conserved gate region; other site 498213005287 putative PBP binding loops; other site 498213005288 ABC-ATPase subunit interface; other site 498213005289 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 498213005290 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 498213005291 Walker A/P-loop; other site 498213005292 ATP binding site [chemical binding]; other site 498213005293 Q-loop/lid; other site 498213005294 ABC transporter signature motif; other site 498213005295 Walker B; other site 498213005296 D-loop; other site 498213005297 H-loop/switch region; other site 498213005298 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 498213005299 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 498213005300 Walker A/P-loop; other site 498213005301 ATP binding site [chemical binding]; other site 498213005302 Q-loop/lid; other site 498213005303 ABC transporter signature motif; other site 498213005304 Walker B; other site 498213005305 D-loop; other site 498213005306 H-loop/switch region; other site 498213005307 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 498213005308 active site 498213005309 catalytic site [active] 498213005310 substrate binding site [chemical binding]; other site 498213005311 Predicted secreted protein [Function unknown]; Region: COG4086 498213005312 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 498213005313 Methyltransferase domain; Region: Methyltransf_31; pfam13847 498213005314 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 498213005315 S-adenosylmethionine binding site [chemical binding]; other site 498213005316 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 498213005317 Major Facilitator Superfamily; Region: MFS_1; pfam07690 498213005318 putative substrate translocation pore; other site 498213005319 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 498213005320 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 498213005321 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 498213005322 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 498213005323 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 498213005324 putative substrate binding site [chemical binding]; other site 498213005325 putative ATP binding site [chemical binding]; other site 498213005326 Major Facilitator Superfamily; Region: MFS_1; pfam07690 498213005327 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 498213005328 putative substrate translocation pore; other site 498213005329 Putative amidase domain; Region: Amidase_6; pfam12671 498213005330 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 498213005331 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 498213005332 substrate binding site [chemical binding]; other site 498213005333 ATP binding site [chemical binding]; other site 498213005334 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 498213005335 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 498213005336 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 498213005337 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 498213005338 DNA-binding site [nucleotide binding]; DNA binding site 498213005339 RNA-binding motif; other site 498213005340 Cache domain; Region: Cache_1; pfam02743 498213005341 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 498213005342 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213005343 dimer interface [polypeptide binding]; other site 498213005344 putative CheW interface [polypeptide binding]; other site 498213005345 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 498213005346 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 498213005347 Pecanex protein (C-terminus); Region: Pecanex_C; pfam05041 498213005348 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 498213005349 ABC transporter; Region: ABC_tran_2; pfam12848 498213005350 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 498213005351 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 498213005352 putative deacylase active site [active] 498213005353 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 498213005354 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 498213005355 4Fe-4S binding domain; Region: Fer4; cl02805 498213005356 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 498213005357 Response regulator receiver domain; Region: Response_reg; pfam00072 498213005358 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 498213005359 active site 498213005360 phosphorylation site [posttranslational modification] 498213005361 intermolecular recognition site; other site 498213005362 dimerization interface [polypeptide binding]; other site 498213005363 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 498213005364 DEAD-like helicases superfamily; Region: DEXDc; smart00487 498213005365 ATP binding site [chemical binding]; other site 498213005366 putative Mg++ binding site [ion binding]; other site 498213005367 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 498213005368 nucleotide binding region [chemical binding]; other site 498213005369 ATP-binding site [chemical binding]; other site 498213005370 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 498213005371 S1 domain; Region: S1_2; pfam13509 498213005372 S1 domain; Region: S1_2; pfam13509 498213005373 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 498213005374 RNA binding site [nucleotide binding]; other site 498213005375 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 498213005376 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 498213005377 ATP binding site [chemical binding]; other site 498213005378 Mg++ binding site [ion binding]; other site 498213005379 motif III; other site 498213005380 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 498213005381 nucleotide binding region [chemical binding]; other site 498213005382 ATP-binding site [chemical binding]; other site 498213005383 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 498213005384 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 498213005385 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 498213005386 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 498213005387 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 498213005388 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 498213005389 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 498213005390 Leucine rich repeat; Region: LRR_8; pfam13855 498213005391 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 498213005392 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 498213005393 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 498213005394 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 498213005395 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 498213005396 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 498213005397 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 498213005398 Ferritin-like domain; Region: Ferritin; pfam00210 498213005399 ferroxidase diiron center [ion binding]; other site 498213005400 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 498213005401 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 498213005402 active site 498213005403 phosphorylation site [posttranslational modification] 498213005404 intermolecular recognition site; other site 498213005405 dimerization interface [polypeptide binding]; other site 498213005406 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 498213005407 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 498213005408 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 498213005409 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 498213005410 Nucleoside recognition; Region: Gate; pfam07670 498213005411 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 498213005412 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 498213005413 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 498213005414 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 498213005415 active site 498213005416 DNA binding site [nucleotide binding] 498213005417 Int/Topo IB signature motif; other site 498213005418 LexA repressor; Validated; Region: PRK00215 498213005419 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 498213005420 putative Zn2+ binding site [ion binding]; other site 498213005421 putative DNA binding site [nucleotide binding]; other site 498213005422 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 498213005423 Catalytic site [active] 498213005424 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 498213005425 Aluminium resistance protein; Region: Alum_res; pfam06838 498213005426 bacterial Hfq-like; Region: Hfq; cd01716 498213005427 hexamer interface [polypeptide binding]; other site 498213005428 Sm1 motif; other site 498213005429 RNA binding site [nucleotide binding]; other site 498213005430 Sm2 motif; other site 498213005431 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 498213005432 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 498213005433 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 498213005434 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 498213005435 ATP binding site [chemical binding]; other site 498213005436 Mg2+ binding site [ion binding]; other site 498213005437 G-X-G motif; other site 498213005438 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 498213005439 ATP binding site [chemical binding]; other site 498213005440 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 498213005441 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 498213005442 MutS domain I; Region: MutS_I; pfam01624 498213005443 MutS domain II; Region: MutS_II; pfam05188 498213005444 MutS domain III; Region: MutS_III; pfam05192 498213005445 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 498213005446 Walker A/P-loop; other site 498213005447 ATP binding site [chemical binding]; other site 498213005448 Q-loop/lid; other site 498213005449 ABC transporter signature motif; other site 498213005450 Walker B; other site 498213005451 D-loop; other site 498213005452 H-loop/switch region; other site 498213005453 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 498213005454 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 498213005455 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 498213005456 FeS/SAM binding site; other site 498213005457 TRAM domain; Region: TRAM; pfam01938 498213005458 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 498213005459 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 498213005460 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213005461 homodimer interface [polypeptide binding]; other site 498213005462 catalytic residue [active] 498213005463 aspartate aminotransferase; Provisional; Region: PRK07568 498213005464 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 498213005465 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213005466 homodimer interface [polypeptide binding]; other site 498213005467 catalytic residue [active] 498213005468 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 498213005469 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 498213005470 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 498213005471 LytB protein; Region: LYTB; cl00507 498213005472 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 498213005473 RNA binding site [nucleotide binding]; other site 498213005474 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 498213005475 RNA binding site [nucleotide binding]; other site 498213005476 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 498213005477 RNA binding site [nucleotide binding]; other site 498213005478 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 498213005479 RNA binding site [nucleotide binding]; other site 498213005480 domain interface; other site 498213005481 cytidylate kinase; Provisional; Region: cmk; PRK00023 498213005482 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 498213005483 CMP-binding site; other site 498213005484 The sites determining sugar specificity; other site 498213005485 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 498213005486 homotrimer interaction site [polypeptide binding]; other site 498213005487 active site 498213005488 flavoprotein, HI0933 family; Region: TIGR00275 498213005489 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 498213005490 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 498213005491 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 498213005492 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 498213005493 NAD(P) binding site [chemical binding]; other site 498213005494 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 498213005495 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 498213005496 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 498213005497 putative active site [active] 498213005498 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 498213005499 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 498213005500 RNA binding surface [nucleotide binding]; other site 498213005501 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 498213005502 active site 498213005503 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 498213005504 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 498213005505 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 498213005506 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 498213005507 DXD motif; other site 498213005508 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 498213005509 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 498213005510 dimerization interface [polypeptide binding]; other site 498213005511 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213005512 dimer interface [polypeptide binding]; other site 498213005513 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 498213005514 putative CheW interface [polypeptide binding]; other site 498213005515 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 498213005516 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 498213005517 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 498213005518 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 498213005519 catalytic residues [active] 498213005520 Predicted amidohydrolase [General function prediction only]; Region: COG0388 498213005521 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 498213005522 putative active site [active] 498213005523 catalytic triad [active] 498213005524 dimer interface [polypeptide binding]; other site 498213005525 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 498213005526 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 498213005527 TrkA-C domain; Region: TrkA_C; pfam02080 498213005528 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 498213005529 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 498213005530 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213005531 Coenzyme A binding pocket [chemical binding]; other site 498213005532 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 498213005533 active site residue [active] 498213005534 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 498213005535 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 498213005536 dimer interface [polypeptide binding]; other site 498213005537 [2Fe-2S] cluster binding site [ion binding]; other site 498213005538 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 498213005539 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 498213005540 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 498213005541 Putative Fe-S cluster; Region: FeS; cl17515 498213005542 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 498213005543 putative active site [active] 498213005544 heme pocket [chemical binding]; other site 498213005545 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 498213005546 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 498213005547 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 498213005548 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 498213005549 Putative Fe-S cluster; Region: FeS; cl17515 498213005550 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 498213005551 putative active site [active] 498213005552 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 498213005553 dimerization interface [polypeptide binding]; other site 498213005554 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 498213005555 ATP binding site [chemical binding]; other site 498213005556 Hydrogenase formation hypA family; Region: HypD; pfam01924 498213005557 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 498213005558 HupF/HypC family; Region: HupF_HypC; pfam01455 498213005559 Acylphosphatase; Region: Acylphosphatase; pfam00708 498213005560 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 498213005561 HypF finger; Region: zf-HYPF; pfam07503 498213005562 HypF finger; Region: zf-HYPF; pfam07503 498213005563 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 498213005564 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 498213005565 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 498213005566 nickel binding site [ion binding]; other site 498213005567 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 498213005568 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 498213005569 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 498213005570 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 498213005571 TraX protein; Region: TraX; pfam05857 498213005572 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 498213005573 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 498213005574 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213005575 Walker A/P-loop; other site 498213005576 ATP binding site [chemical binding]; other site 498213005577 Q-loop/lid; other site 498213005578 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 498213005579 ABC transporter signature motif; other site 498213005580 ABC transporter; Region: ABC_tran_2; pfam12848 498213005581 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 498213005582 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 498213005583 catalytic loop [active] 498213005584 iron binding site [ion binding]; other site 498213005585 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 498213005586 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 498213005587 4Fe-4S binding domain; Region: Fer4; pfam00037 498213005588 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 498213005589 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 498213005590 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 498213005591 dimer interface [polypeptide binding]; other site 498213005592 [2Fe-2S] cluster binding site [ion binding]; other site 498213005593 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 498213005594 SLBB domain; Region: SLBB; pfam10531 498213005595 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 498213005596 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 498213005597 4Fe-4S binding domain; Region: Fer4; pfam00037 498213005598 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 498213005599 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 498213005600 putative dimer interface [polypeptide binding]; other site 498213005601 [2Fe-2S] cluster binding site [ion binding]; other site 498213005602 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 498213005603 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 498213005604 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 498213005605 Domain of unknown function DUF20; Region: UPF0118; pfam01594 498213005606 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 498213005607 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 498213005608 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 498213005609 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 498213005610 sporulation protein YtfJ; Region: spore_ytfJ; TIGR02874 498213005611 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 498213005612 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 498213005613 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 498213005614 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 498213005615 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 498213005616 EcsC protein family; Region: EcsC; pfam12787 498213005617 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 498213005618 putative catalytic site [active] 498213005619 putative metal binding site [ion binding]; other site 498213005620 putative phosphate binding site [ion binding]; other site 498213005621 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 498213005622 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 498213005623 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 498213005624 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 498213005625 purine nucleoside phosphorylase; Provisional; Region: PRK08202 498213005626 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 498213005627 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 498213005628 Int/Topo IB signature motif; other site 498213005629 active site 498213005630 stage II sporulation protein M; Region: spo_II_M; TIGR02831 498213005631 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 498213005632 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 498213005633 dimer interface [polypeptide binding]; other site 498213005634 ADP-ribose binding site [chemical binding]; other site 498213005635 active site 498213005636 nudix motif; other site 498213005637 metal binding site [ion binding]; metal-binding site 498213005638 inner membrane transporter YjeM; Provisional; Region: PRK15238 498213005639 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 498213005640 NlpC/P60 family; Region: NLPC_P60; pfam00877 498213005641 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 498213005642 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 498213005643 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 498213005644 active site 498213005645 phosphorylation site [posttranslational modification] 498213005646 intermolecular recognition site; other site 498213005647 dimerization interface [polypeptide binding]; other site 498213005648 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 498213005649 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 498213005650 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 498213005651 Homoserine O-succinyltransferase; Region: HTS; pfam04204 498213005652 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 498213005653 conserved cys residue [active] 498213005654 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 498213005655 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 498213005656 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 498213005657 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 498213005658 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 498213005659 homodimer interface [polypeptide binding]; other site 498213005660 substrate-cofactor binding pocket; other site 498213005661 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213005662 catalytic residue [active] 498213005663 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 498213005664 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 498213005665 Walker A/P-loop; other site 498213005666 ATP binding site [chemical binding]; other site 498213005667 Q-loop/lid; other site 498213005668 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 498213005669 ABC transporter signature motif; other site 498213005670 Walker B; other site 498213005671 D-loop; other site 498213005672 H-loop/switch region; other site 498213005673 arginine repressor; Provisional; Region: argR; PRK00441 498213005674 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 498213005675 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 498213005676 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 498213005677 ATP-NAD kinase; Region: NAD_kinase; pfam01513 498213005678 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 498213005679 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 498213005680 RNA binding surface [nucleotide binding]; other site 498213005681 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 498213005682 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 498213005683 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 498213005684 TPP-binding site; other site 498213005685 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 498213005686 PYR/PP interface [polypeptide binding]; other site 498213005687 dimer interface [polypeptide binding]; other site 498213005688 TPP binding site [chemical binding]; other site 498213005689 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 498213005690 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 498213005691 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 498213005692 substrate binding pocket [chemical binding]; other site 498213005693 chain length determination region; other site 498213005694 substrate-Mg2+ binding site; other site 498213005695 catalytic residues [active] 498213005696 aspartate-rich region 1; other site 498213005697 active site lid residues [active] 498213005698 aspartate-rich region 2; other site 498213005699 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 498213005700 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 498213005701 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 498213005702 generic binding surface I; other site 498213005703 generic binding surface II; other site 498213005704 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 498213005705 Asp23 family; Region: Asp23; pfam03780 498213005706 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 498213005707 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 498213005708 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 498213005709 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; pfam09546 498213005710 stage III sporulation protein AD; Region: spore_III_AD; TIGR02849 498213005711 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 498213005712 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 498213005713 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 498213005714 elongation factor P; Validated; Region: PRK00529 498213005715 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 498213005716 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 498213005717 RNA binding site [nucleotide binding]; other site 498213005718 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 498213005719 RNA binding site [nucleotide binding]; other site 498213005720 Dehydroquinase class II; Region: DHquinase_II; pfam01220 498213005721 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 498213005722 trimer interface [polypeptide binding]; other site 498213005723 active site 498213005724 dimer interface [polypeptide binding]; other site 498213005725 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 498213005726 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 498213005727 ADP binding site [chemical binding]; other site 498213005728 magnesium binding site [ion binding]; other site 498213005729 putative shikimate binding site; other site 498213005730 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 498213005731 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 498213005732 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 498213005733 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 498213005734 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 498213005735 P63C domain; Region: P63C; pfam10546 498213005736 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 498213005737 active site 498213005738 DNA binding site [nucleotide binding] 498213005739 Int/Topo IB signature motif; other site 498213005740 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 498213005741 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 498213005742 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 498213005743 active site 498213005744 DNA binding site [nucleotide binding] 498213005745 Int/Topo IB signature motif; other site 498213005746 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 498213005747 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 498213005748 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 498213005749 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 498213005750 Walker A motif; other site 498213005751 ATP binding site [chemical binding]; other site 498213005752 Walker B motif; other site 498213005753 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 498213005754 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 498213005755 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 498213005756 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 498213005757 Domain of unknown function (DUF814); Region: DUF814; pfam05670 498213005758 tRNA pseudouridine synthase A; Reviewed; Region: PRK12434 498213005759 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 498213005760 dimerization interface 3.5A [polypeptide binding]; other site 498213005761 active site 498213005762 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 498213005763 nucleotide binding site/active site [active] 498213005764 HIT family signature motif; other site 498213005765 catalytic residue [active] 498213005766 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 498213005767 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213005768 catalytic residue [active] 498213005769 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 498213005770 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 498213005771 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 498213005772 dimerization interface [polypeptide binding]; other site 498213005773 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213005774 dimer interface [polypeptide binding]; other site 498213005775 putative CheW interface [polypeptide binding]; other site 498213005776 clostripain; Region: clostrip; TIGR02806 498213005777 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 498213005778 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213005779 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 498213005780 active site 498213005781 phosphorylation site [posttranslational modification] 498213005782 intermolecular recognition site; other site 498213005783 dimerization interface [polypeptide binding]; other site 498213005784 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 498213005785 DNA binding site [nucleotide binding] 498213005786 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213005787 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 498213005788 dimer interface [polypeptide binding]; other site 498213005789 phosphorylation site [posttranslational modification] 498213005790 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 498213005791 ATP binding site [chemical binding]; other site 498213005792 Mg2+ binding site [ion binding]; other site 498213005793 G-X-G motif; other site 498213005794 methionine sulfoxide reductase A; Provisional; Region: PRK14054 498213005795 Response regulator receiver domain; Region: Response_reg; pfam00072 498213005796 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 498213005797 active site 498213005798 phosphorylation site [posttranslational modification] 498213005799 intermolecular recognition site; other site 498213005800 dimerization interface [polypeptide binding]; other site 498213005801 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 498213005802 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 498213005803 active site 498213005804 phosphorylation site [posttranslational modification] 498213005805 intermolecular recognition site; other site 498213005806 dimerization interface [polypeptide binding]; other site 498213005807 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213005808 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 498213005809 dimerization interface [polypeptide binding]; other site 498213005810 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 498213005811 dimer interface [polypeptide binding]; other site 498213005812 phosphorylation site [posttranslational modification] 498213005813 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 498213005814 ATP binding site [chemical binding]; other site 498213005815 Mg2+ binding site [ion binding]; other site 498213005816 G-X-G motif; other site 498213005817 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213005818 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 498213005819 intermolecular recognition site; other site 498213005820 active site 498213005821 dimerization interface [polypeptide binding]; other site 498213005822 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 498213005823 DNA binding site [nucleotide binding] 498213005824 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 498213005825 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 498213005826 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 498213005827 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213005828 Walker A/P-loop; other site 498213005829 ATP binding site [chemical binding]; other site 498213005830 Q-loop/lid; other site 498213005831 ABC transporter signature motif; other site 498213005832 Walker B; other site 498213005833 D-loop; other site 498213005834 H-loop/switch region; other site 498213005835 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 498213005836 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 498213005837 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 498213005838 Walker A/P-loop; other site 498213005839 ATP binding site [chemical binding]; other site 498213005840 Q-loop/lid; other site 498213005841 ABC transporter signature motif; other site 498213005842 Walker B; other site 498213005843 D-loop; other site 498213005844 H-loop/switch region; other site 498213005845 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 498213005846 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 498213005847 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213005848 Walker A/P-loop; other site 498213005849 ATP binding site [chemical binding]; other site 498213005850 Q-loop/lid; other site 498213005851 ABC transporter signature motif; other site 498213005852 Walker B; other site 498213005853 D-loop; other site 498213005854 H-loop/switch region; other site 498213005855 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 498213005856 MarR family; Region: MarR; pfam01047 498213005857 MarR family; Region: MarR_2; cl17246 498213005858 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 498213005859 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213005860 Coenzyme A binding pocket [chemical binding]; other site 498213005861 hypothetical protein; Provisional; Region: PRK08328 498213005862 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 498213005863 ATP binding site [chemical binding]; other site 498213005864 substrate interface [chemical binding]; other site 498213005865 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 498213005866 MoaE interaction surface [polypeptide binding]; other site 498213005867 MoeB interaction surface [polypeptide binding]; other site 498213005868 thiocarboxylated glycine; other site 498213005869 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 498213005870 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 498213005871 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 498213005872 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 498213005873 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 498213005874 putative active site [active] 498213005875 heme pocket [chemical binding]; other site 498213005876 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 498213005877 Walker A motif; other site 498213005878 ATP binding site [chemical binding]; other site 498213005879 Walker B motif; other site 498213005880 arginine finger; other site 498213005881 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 498213005882 MOSC domain; Region: MOSC; pfam03473 498213005883 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 498213005884 trimer interface [polypeptide binding]; other site 498213005885 dimer interface [polypeptide binding]; other site 498213005886 putative active site [active] 498213005887 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 498213005888 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 498213005889 FeS/SAM binding site; other site 498213005890 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 498213005891 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 498213005892 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 498213005893 dimer interface [polypeptide binding]; other site 498213005894 putative functional site; other site 498213005895 putative MPT binding site; other site 498213005896 PBP superfamily domain; Region: PBP_like; pfam12727 498213005897 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 498213005898 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 498213005899 dimer interface [polypeptide binding]; other site 498213005900 putative functional site; other site 498213005901 putative MPT binding site; other site 498213005902 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 498213005903 MPT binding site; other site 498213005904 trimer interface [polypeptide binding]; other site 498213005905 phosphate ABC transporter, ATP-binding protein; Region: 3a0107s01c2; TIGR00972 498213005906 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 498213005907 Walker A/P-loop; other site 498213005908 ATP binding site [chemical binding]; other site 498213005909 Q-loop/lid; other site 498213005910 ABC transporter signature motif; other site 498213005911 Walker B; other site 498213005912 D-loop; other site 498213005913 H-loop/switch region; other site 498213005914 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213005915 dimer interface [polypeptide binding]; other site 498213005916 conserved gate region; other site 498213005917 putative PBP binding loops; other site 498213005918 ABC-ATPase subunit interface; other site 498213005919 PBP superfamily domain; Region: PBP_like_2; pfam12849 498213005920 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 498213005921 putative efflux protein, MATE family; Region: matE; TIGR00797 498213005922 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 498213005923 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 498213005924 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 498213005925 Walker A/P-loop; other site 498213005926 ATP binding site [chemical binding]; other site 498213005927 Q-loop/lid; other site 498213005928 ABC transporter signature motif; other site 498213005929 Walker B; other site 498213005930 D-loop; other site 498213005931 H-loop/switch region; other site 498213005932 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 498213005933 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 498213005934 FtsX-like permease family; Region: FtsX; pfam02687 498213005935 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 498213005936 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 498213005937 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 498213005938 Walker A/P-loop; other site 498213005939 ATP binding site [chemical binding]; other site 498213005940 Q-loop/lid; other site 498213005941 ABC transporter signature motif; other site 498213005942 Walker B; other site 498213005943 D-loop; other site 498213005944 H-loop/switch region; other site 498213005945 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 498213005946 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 498213005947 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213005948 Walker A/P-loop; other site 498213005949 ATP binding site [chemical binding]; other site 498213005950 Q-loop/lid; other site 498213005951 ABC transporter signature motif; other site 498213005952 Walker B; other site 498213005953 D-loop; other site 498213005954 H-loop/switch region; other site 498213005955 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 498213005956 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 498213005957 DNA binding residues [nucleotide binding] 498213005958 dimer interface [polypeptide binding]; other site 498213005959 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 498213005960 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 498213005961 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 498213005962 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 498213005963 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 498213005964 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 498213005965 Leucine-rich repeats; other site 498213005966 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 498213005967 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 498213005968 M6 family metalloprotease domain; Region: M6dom_TIGR03296 498213005969 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 498213005970 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 498213005971 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 498213005972 Walker A motif; other site 498213005973 ATP binding site [chemical binding]; other site 498213005974 Walker B motif; other site 498213005975 arginine finger; other site 498213005976 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 498213005977 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 498213005978 homotrimer interaction site [polypeptide binding]; other site 498213005979 putative active site [active] 498213005980 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 498213005981 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 498213005982 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 498213005983 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 498213005984 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213005985 homodimer interface [polypeptide binding]; other site 498213005986 catalytic residue [active] 498213005987 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 498213005988 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 498213005989 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 498213005990 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 498213005991 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 498213005992 M6 family metalloprotease domain; Region: M6dom_TIGR03296 498213005993 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 498213005994 dimerization interface [polypeptide binding]; other site 498213005995 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213005996 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 498213005997 dimer interface [polypeptide binding]; other site 498213005998 phosphorylation site [posttranslational modification] 498213005999 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 498213006000 ATP binding site [chemical binding]; other site 498213006001 Mg2+ binding site [ion binding]; other site 498213006002 G-X-G motif; other site 498213006003 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213006004 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 498213006005 active site 498213006006 phosphorylation site [posttranslational modification] 498213006007 intermolecular recognition site; other site 498213006008 dimerization interface [polypeptide binding]; other site 498213006009 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 498213006010 DNA binding site [nucleotide binding] 498213006011 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 498213006012 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 498213006013 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 498213006014 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 498213006015 Walker A/P-loop; other site 498213006016 ATP binding site [chemical binding]; other site 498213006017 Q-loop/lid; other site 498213006018 ABC transporter signature motif; other site 498213006019 Walker B; other site 498213006020 D-loop; other site 498213006021 H-loop/switch region; other site 498213006022 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 498213006023 Walker A/P-loop; other site 498213006024 ATP binding site [chemical binding]; other site 498213006025 Q-loop/lid; other site 498213006026 ABC transporter signature motif; other site 498213006027 Walker B; other site 498213006028 D-loop; other site 498213006029 H-loop/switch region; other site 498213006030 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 498213006031 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 498213006032 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 498213006033 dimer interface [polypeptide binding]; other site 498213006034 active site 498213006035 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 498213006036 substrate binding site [chemical binding]; other site 498213006037 catalytic residue [active] 498213006038 Spore germination protein; Region: Spore_permease; cl17796 498213006039 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 498213006040 Spore germination protein; Region: Spore_permease; cl17796 498213006041 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 498213006042 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 498213006043 Spore germination protein; Region: Spore_permease; cl17796 498213006044 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 498213006045 alkylhydroperoxidase/carboxymuconolactone decarboxylase family protein; Region: perox_w_seleSAM; TIGR04169 498213006046 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 498213006047 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 498213006048 FeS/SAM binding site; other site 498213006049 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 498213006050 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 498213006051 binding surface 498213006052 TPR repeat; Region: TPR_11; pfam13414 498213006053 TPR motif; other site 498213006054 Tetratricopeptide repeat; Region: TPR_16; pfam13432 498213006055 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 498213006056 binding surface 498213006057 TPR motif; other site 498213006058 TPR repeat; Region: TPR_11; pfam13414 498213006059 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 498213006060 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 498213006061 TrkA-C domain; Region: TrkA_C; pfam02080 498213006062 heat shock protein 90; Provisional; Region: PRK05218 498213006063 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 498213006064 ATP binding site [chemical binding]; other site 498213006065 Mg2+ binding site [ion binding]; other site 498213006066 G-X-G motif; other site 498213006067 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213006068 Walker A/P-loop; other site 498213006069 ATP binding site [chemical binding]; other site 498213006070 Q-loop/lid; other site 498213006071 ABC transporter signature motif; other site 498213006072 Walker B; other site 498213006073 D-loop; other site 498213006074 H-loop/switch region; other site 498213006075 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 498213006076 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 498213006077 active site turn [active] 498213006078 phosphorylation site [posttranslational modification] 498213006079 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 498213006080 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 498213006081 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 498213006082 Ca binding site [ion binding]; other site 498213006083 active site 498213006084 catalytic site [active] 498213006085 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 498213006086 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498213006087 DNA-binding site [nucleotide binding]; DNA binding site 498213006088 UTRA domain; Region: UTRA; pfam07702 498213006089 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 498213006090 active site 498213006091 phosphorylation site [posttranslational modification] 498213006092 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 498213006093 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 498213006094 active site 498213006095 P-loop; other site 498213006096 phosphorylation site [posttranslational modification] 498213006097 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 498213006098 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 498213006099 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 498213006100 putative substrate binding site [chemical binding]; other site 498213006101 putative ATP binding site [chemical binding]; other site 498213006102 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 498213006103 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 498213006104 intersubunit interface [polypeptide binding]; other site 498213006105 active site 498213006106 zinc binding site [ion binding]; other site 498213006107 Na+ binding site [ion binding]; other site 498213006108 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 498213006109 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 498213006110 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 498213006111 putative active site [active] 498213006112 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 498213006113 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 498213006114 homotrimer interaction site [polypeptide binding]; other site 498213006115 putative active site [active] 498213006116 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 498213006117 Radical SAM superfamily; Region: Radical_SAM; pfam04055 498213006118 FeS/SAM binding site; other site 498213006119 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 498213006120 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 498213006121 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 498213006122 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 498213006123 dimer interface [polypeptide binding]; other site 498213006124 active site 498213006125 metal binding site [ion binding]; metal-binding site 498213006126 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 498213006127 dimerization interface [polypeptide binding]; other site 498213006128 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498213006129 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213006130 dimer interface [polypeptide binding]; other site 498213006131 putative CheW interface [polypeptide binding]; other site 498213006132 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 498213006133 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 498213006134 dimer interface [polypeptide binding]; other site 498213006135 active site 498213006136 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 498213006137 substrate binding site [chemical binding]; other site 498213006138 catalytic residue [active] 498213006139 ATP cone domain; Region: ATP-cone; pfam03477 498213006140 putative oxidoreductase; Provisional; Region: PRK11579 498213006141 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 498213006142 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 498213006143 adenine phosphoribosyltransferase; Provisional; Region: PRK07322 498213006144 active site 498213006145 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 498213006146 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 498213006147 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 498213006148 metal binding site [ion binding]; metal-binding site 498213006149 active site 498213006150 I-site; other site 498213006151 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 498213006152 GAF domain; Region: GAF_3; pfam13492 498213006153 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 498213006154 PAS domain; Region: PAS; smart00091 498213006155 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 498213006156 Walker A motif; other site 498213006157 ATP binding site [chemical binding]; other site 498213006158 Walker B motif; other site 498213006159 arginine finger; other site 498213006160 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 498213006161 DEAD-like helicases superfamily; Region: DEXDc; smart00487 498213006162 ATP binding site [chemical binding]; other site 498213006163 Mg++ binding site [ion binding]; other site 498213006164 motif III; other site 498213006165 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 498213006166 nucleotide binding region [chemical binding]; other site 498213006167 ATP-binding site [chemical binding]; other site 498213006168 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 498213006169 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 498213006170 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 498213006171 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498213006172 DNA-binding site [nucleotide binding]; DNA binding site 498213006173 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 498213006174 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213006175 homodimer interface [polypeptide binding]; other site 498213006176 catalytic residue [active] 498213006177 EamA-like transporter family; Region: EamA; pfam00892 498213006178 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 498213006179 aspartate aminotransferase; Provisional; Region: PRK06348 498213006180 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 498213006181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213006182 homodimer interface [polypeptide binding]; other site 498213006183 catalytic residue [active] 498213006184 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 498213006185 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 498213006186 Walker A/P-loop; other site 498213006187 ATP binding site [chemical binding]; other site 498213006188 Q-loop/lid; other site 498213006189 ABC transporter signature motif; other site 498213006190 Walker B; other site 498213006191 D-loop; other site 498213006192 H-loop/switch region; other site 498213006193 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 498213006194 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213006195 dimer interface [polypeptide binding]; other site 498213006196 conserved gate region; other site 498213006197 putative PBP binding loops; other site 498213006198 ABC-ATPase subunit interface; other site 498213006199 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 498213006200 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 498213006201 substrate binding pocket [chemical binding]; other site 498213006202 membrane-bound complex binding site; other site 498213006203 hinge residues; other site 498213006204 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 498213006205 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 498213006206 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 498213006207 catalytic residue [active] 498213006208 Chloramphenicol acetyltransferase; Region: CAT; cl02008 498213006209 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 498213006210 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; pfam09855 498213006211 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 498213006212 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 498213006213 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 498213006214 sequence-specific DNA binding site [nucleotide binding]; other site 498213006215 salt bridge; other site 498213006216 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 498213006217 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 498213006218 putative substrate translocation pore; other site 498213006219 Major Facilitator Superfamily; Region: MFS_1; pfam07690 498213006220 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 498213006221 putative substrate translocation pore; other site 498213006222 POT family; Region: PTR2; cl17359 498213006223 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 498213006224 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 498213006225 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 498213006226 active site 498213006227 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 498213006228 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 498213006229 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 498213006230 Na2 binding site [ion binding]; other site 498213006231 putative substrate binding site 1 [chemical binding]; other site 498213006232 Na binding site 1 [ion binding]; other site 498213006233 putative substrate binding site 2 [chemical binding]; other site 498213006234 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 498213006235 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 498213006236 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498213006237 DNA-binding site [nucleotide binding]; DNA binding site 498213006238 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 498213006239 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213006240 homodimer interface [polypeptide binding]; other site 498213006241 catalytic residue [active] 498213006242 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 498213006243 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 498213006244 homotrimer interaction site [polypeptide binding]; other site 498213006245 putative active site [active] 498213006246 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 498213006247 nucleophilic elbow; other site 498213006248 catalytic triad; other site 498213006249 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 498213006250 putative FMN binding site [chemical binding]; other site 498213006251 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 498213006252 metal ion-dependent adhesion site (MIDAS); other site 498213006253 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 498213006254 myosin-cross-reactive antigen; Provisional; Region: PRK13977 498213006255 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 498213006256 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 498213006257 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 498213006258 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 498213006259 active site 498213006260 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 498213006261 active site 498213006262 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 498213006263 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 498213006264 putative trimer interface [polypeptide binding]; other site 498213006265 putative CoA binding site [chemical binding]; other site 498213006266 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 498213006267 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 498213006268 inhibitor-cofactor binding pocket; inhibition site 498213006269 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213006270 catalytic residue [active] 498213006271 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 498213006272 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 498213006273 active site 498213006274 G1P_TT_long represents the long form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_long; cd04189 498213006275 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 498213006276 substrate binding site; other site 498213006277 metal-binding site 498213006278 Oligomer interface; other site 498213006279 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 498213006280 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 498213006281 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 498213006282 NAD binding site [chemical binding]; other site 498213006283 substrate binding site [chemical binding]; other site 498213006284 homodimer interface [polypeptide binding]; other site 498213006285 active site 498213006286 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 498213006287 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 498213006288 Helix-turn-helix domain; Region: HTH_18; pfam12833 498213006289 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213006290 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 498213006291 PGAP1-like protein; Region: PGAP1; pfam07819 498213006292 VanZ like family; Region: VanZ; pfam04892 498213006293 cytosine deaminase; Provisional; Region: PRK09230 498213006294 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 498213006295 active site 498213006296 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 498213006297 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 498213006298 Na binding site [ion binding]; other site 498213006299 putative substrate binding site [chemical binding]; other site 498213006300 Radical SAM superfamily; Region: Radical_SAM; pfam04055 498213006301 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 498213006302 FeS/SAM binding site; other site 498213006303 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 498213006304 Uncharacterized conserved protein [Function unknown]; Region: COG1479 498213006305 Protein of unknown function DUF262; Region: DUF262; pfam03235 498213006306 Protein of unknown function DUF262; Region: DUF262; pfam03235 498213006307 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 498213006308 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213006309 AAA domain; Region: AAA_21; pfam13304 498213006310 ABC transporter signature motif; other site 498213006311 Walker B; other site 498213006312 D-loop; other site 498213006313 H-loop/switch region; other site 498213006314 Restriction endonuclease MspI; Region: Endonuc-MspI; pfam09208 498213006315 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 498213006316 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 498213006317 cofactor binding site; other site 498213006318 DNA binding site [nucleotide binding] 498213006319 substrate interaction site [chemical binding]; other site 498213006320 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 498213006321 Protein of unknown function DUF262; Region: DUF262; pfam03235 498213006322 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 498213006323 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 498213006324 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498213006325 NAD(P) binding site [chemical binding]; other site 498213006326 active site 498213006327 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 498213006328 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 498213006329 active site 498213006330 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 498213006331 active site 498213006332 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 498213006333 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 498213006334 active site 498213006335 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 498213006336 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 498213006337 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 498213006338 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 498213006339 G1 box; other site 498213006340 putative GEF interaction site [polypeptide binding]; other site 498213006341 GTP/Mg2+ binding site [chemical binding]; other site 498213006342 Switch I region; other site 498213006343 G2 box; other site 498213006344 G3 box; other site 498213006345 Switch II region; other site 498213006346 G4 box; other site 498213006347 G5 box; other site 498213006348 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 498213006349 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 498213006350 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 498213006351 Viral enhancin protein; Region: Enhancin; pfam03272 498213006352 Peptidase M60-like family; Region: M60-like; pfam13402 498213006353 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 498213006354 aromatic chitin/cellulose binding site residues [chemical binding]; other site 498213006355 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 498213006356 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 498213006357 Hexamer interface [polypeptide binding]; other site 498213006358 Putative hexagonal pore residue; other site 498213006359 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 498213006360 Propanediol utilisation protein PduL; Region: PduL; pfam06130 498213006361 Propanediol utilisation protein PduL; Region: PduL; pfam06130 498213006362 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 498213006363 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 498213006364 putative catalytic cysteine [active] 498213006365 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 498213006366 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 498213006367 Hexamer interface [polypeptide binding]; other site 498213006368 Hexagonal pore residue; other site 498213006369 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 498213006370 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 498213006371 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 498213006372 Hexamer/Pentamer interface [polypeptide binding]; other site 498213006373 central pore; other site 498213006374 Bacterial Micro-Compartment (BMC)-like domain 2; Region: BMC_like_2; cd07055 498213006375 putative hexamer interface [polypeptide binding]; other site 498213006376 putative hexagonal pore; other site 498213006377 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 498213006378 Cell division protein FtsA; Region: FtsA; cl17206 498213006379 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 498213006380 nucleotide binding site [chemical binding]; other site 498213006381 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 498213006382 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 498213006383 G1 box; other site 498213006384 GTP/Mg2+ binding site [chemical binding]; other site 498213006385 G2 box; other site 498213006386 Switch I region; other site 498213006387 G3 box; other site 498213006388 Switch II region; other site 498213006389 G4 box; other site 498213006390 G5 box; other site 498213006391 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 498213006392 putative hexamer interface [polypeptide binding]; other site 498213006393 putative hexagonal pore; other site 498213006394 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 498213006395 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 498213006396 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 498213006397 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 498213006398 dimer interface [polypeptide binding]; other site 498213006399 active site 498213006400 glycine loop; other site 498213006401 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 498213006402 putative catalytic cysteine [active] 498213006403 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 498213006404 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 498213006405 Hexamer interface [polypeptide binding]; other site 498213006406 Hexagonal pore residue; other site 498213006407 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 498213006408 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 498213006409 Hexamer interface [polypeptide binding]; other site 498213006410 Hexagonal pore residue; other site 498213006411 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 498213006412 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 498213006413 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 498213006414 DNA binding residues [nucleotide binding] 498213006415 drug binding residues [chemical binding]; other site 498213006416 dimer interface [polypeptide binding]; other site 498213006417 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 498213006418 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 498213006419 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 498213006420 putative active site [active] 498213006421 metal binding site [ion binding]; metal-binding site 498213006422 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 498213006423 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 498213006424 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 498213006425 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 498213006426 putative substrate translocation pore; other site 498213006427 Transcriptional regulators [Transcription]; Region: FadR; COG2186 498213006428 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498213006429 DNA-binding site [nucleotide binding]; DNA binding site 498213006430 FCD domain; Region: FCD; pfam07729 498213006431 MarR family; Region: MarR_2; pfam12802 498213006432 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 498213006433 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213006434 Coenzyme A binding pocket [chemical binding]; other site 498213006435 Domain of unknown function (DUF1963); Region: DUF1963; pfam09234 498213006436 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 498213006437 Helix-turn-helix domain; Region: HTH_17; pfam12728 498213006438 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 498213006439 active site 498213006440 catalytic site [active] 498213006441 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 498213006442 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 498213006443 active site 498213006444 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213006445 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 498213006446 ATP binding site [chemical binding]; other site 498213006447 Mg2+ binding site [ion binding]; other site 498213006448 G-X-G motif; other site 498213006449 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213006450 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 498213006451 active site 498213006452 phosphorylation site [posttranslational modification] 498213006453 intermolecular recognition site; other site 498213006454 dimerization interface [polypeptide binding]; other site 498213006455 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 498213006456 DNA binding site [nucleotide binding] 498213006457 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 498213006458 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 498213006459 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 498213006460 Meckelin (Transmembrane protein 67); Region: Meckelin; pfam09773 498213006461 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 498213006462 Zn binding site [ion binding]; other site 498213006463 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 498213006464 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 498213006465 Walker A/P-loop; other site 498213006466 ATP binding site [chemical binding]; other site 498213006467 Q-loop/lid; other site 498213006468 ABC transporter signature motif; other site 498213006469 Walker B; other site 498213006470 D-loop; other site 498213006471 H-loop/switch region; other site 498213006472 putative oxidoreductase; Provisional; Region: PRK11445 498213006473 TrkA-N domain; Region: TrkA_N; pfam02254 498213006474 Predicted transcriptional regulator [Transcription]; Region: COG3655 498213006475 salt bridge; other site 498213006476 non-specific DNA binding site [nucleotide binding]; other site 498213006477 sequence-specific DNA binding site [nucleotide binding]; other site 498213006478 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 498213006479 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 498213006480 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cd05188 498213006481 NAD(P) binding site [chemical binding]; other site 498213006482 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 498213006483 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 498213006484 Metal-binding active site; metal-binding site 498213006485 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics; Region: DOIS; cd08197 498213006486 active site 498213006487 dimer interface [polypeptide binding]; other site 498213006488 metal binding site [ion binding]; metal-binding site 498213006489 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 498213006490 FtsX-like permease family; Region: FtsX; pfam02687 498213006491 FtsX-like permease family; Region: FtsX; pfam02687 498213006492 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 498213006493 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 498213006494 Walker A/P-loop; other site 498213006495 ATP binding site [chemical binding]; other site 498213006496 Q-loop/lid; other site 498213006497 ABC transporter signature motif; other site 498213006498 Walker B; other site 498213006499 D-loop; other site 498213006500 H-loop/switch region; other site 498213006501 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 498213006502 HTH domain; Region: HTH_11; pfam08279 498213006503 HTH domain; Region: HTH_11; pfam08279 498213006504 PRD domain; Region: PRD; pfam00874 498213006505 PRD domain; Region: PRD; pfam00874 498213006506 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 498213006507 active site 498213006508 P-loop; other site 498213006509 phosphorylation site [posttranslational modification] 498213006510 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 498213006511 active site 498213006512 phosphorylation site [posttranslational modification] 498213006513 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 498213006514 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 498213006515 active site 498213006516 P-loop; other site 498213006517 phosphorylation site [posttranslational modification] 498213006518 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 498213006519 active site 498213006520 phosphorylation site [posttranslational modification] 498213006521 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 498213006522 active site 498213006523 intersubunit interactions; other site 498213006524 catalytic residue [active] 498213006525 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 498213006526 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 498213006527 active site 498213006528 substrate binding site [chemical binding]; other site 498213006529 trimer interface [polypeptide binding]; other site 498213006530 CoA binding site [chemical binding]; other site 498213006531 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; cl00279 498213006532 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 498213006533 POT family; Region: PTR2; cl17359 498213006534 Methyltransferase domain; Region: Methyltransf_23; pfam13489 498213006535 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 498213006536 S-adenosylmethionine binding site [chemical binding]; other site 498213006537 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213006538 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 498213006539 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213006540 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 498213006541 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 498213006542 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 498213006543 active site 498213006544 metal binding site [ion binding]; metal-binding site 498213006545 Bacterial SH3 domain; Region: SH3_3; pfam08239 498213006546 Haemolysin XhlA; Region: XhlA; pfam10779 498213006547 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 498213006548 active site 498213006549 PQQ-like domain; Region: PQQ_2; pfam13360 498213006550 Trp docking motif [polypeptide binding]; other site 498213006551 Phage tail protein; Region: Sipho_tail; cl17486 498213006552 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 498213006553 Phage-related protein [Function unknown]; Region: COG5412 498213006554 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 498213006555 Bacteriophage Gp15 protein; Region: Phage_Gp15; pfam06854 498213006556 Replication protein A C terminal; Region: RPA_C; pfam08784 498213006557 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 498213006558 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 498213006559 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 498213006560 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 498213006561 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 498213006562 Helix-turn-helix domain; Region: HTH_28; pfam13518 498213006563 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 498213006564 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 498213006565 DNA binding residues [nucleotide binding] 498213006566 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 498213006567 nucleotide binding site [chemical binding]; other site 498213006568 D5 N terminal like; Region: D5_N; smart00885 498213006569 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 498213006570 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 498213006571 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 498213006572 cofactor binding site; other site 498213006573 DNA binding site [nucleotide binding] 498213006574 substrate interaction site [chemical binding]; other site 498213006575 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 498213006576 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; cl17512 498213006577 beta-clamp/clamp loader binding surface; other site 498213006578 beta-clamp/translesion DNA polymerase binding surface; other site 498213006579 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 498213006580 Protein of unknown function (DUF669); Region: DUF669; pfam05037 498213006581 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 498213006582 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 498213006583 AAA domain; Region: AAA_24; pfam13479 498213006584 phage nucleotide-binding protein; Region: phage_P_loop; TIGR01618 498213006585 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 498213006586 VRR-NUC domain; Region: VRR_NUC; pfam08774 498213006587 Protein of unknown function (DUF1351); Region: DUF1351; pfam07083 498213006588 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 498213006589 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 498213006590 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 498213006591 nucleotide binding region [chemical binding]; other site 498213006592 ATP-binding site [chemical binding]; other site 498213006593 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 498213006594 non-specific DNA binding site [nucleotide binding]; other site 498213006595 salt bridge; other site 498213006596 sequence-specific DNA binding site [nucleotide binding]; other site 498213006597 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 498213006598 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 498213006599 non-specific DNA binding site [nucleotide binding]; other site 498213006600 salt bridge; other site 498213006601 sequence-specific DNA binding site [nucleotide binding]; other site 498213006602 Domain of unknown function (DUF955); Region: DUF955; pfam06114 498213006603 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 498213006604 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 498213006605 Int/Topo IB signature motif; other site 498213006606 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 498213006607 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 498213006608 phosphate binding site [ion binding]; other site 498213006609 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 498213006610 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 498213006611 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 498213006612 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 498213006613 DNA binding residues [nucleotide binding] 498213006614 dimer interface [polypeptide binding]; other site 498213006615 RAMP superfamily; Region: RAMPs; pfam03787 498213006616 CRISPR-associated protein; Region: TIGR03986 498213006617 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 498213006618 CRISPR-associated protein, TIGR03984 family; Region: TIGR03984 498213006619 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 498213006620 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 498213006621 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 498213006622 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 498213006623 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 498213006624 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 498213006625 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 498213006626 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498213006627 DNA-binding site [nucleotide binding]; DNA binding site 498213006628 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 498213006629 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 498213006630 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213006631 homodimer interface [polypeptide binding]; other site 498213006632 catalytic residue [active] 498213006633 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 498213006634 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 498213006635 active site 498213006636 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 498213006637 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 498213006638 NADP binding site [chemical binding]; other site 498213006639 active site 498213006640 regulatory binding site [polypeptide binding]; other site 498213006641 MarR family; Region: MarR_2; cl17246 498213006642 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 498213006643 Staygreen protein; Region: Staygreen; pfam12638 498213006644 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 498213006645 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 498213006646 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 498213006647 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 498213006648 Catalytic domain of Protein Kinases; Region: PKc; cd00180 498213006649 active site 498213006650 ATP binding site [chemical binding]; other site 498213006651 substrate binding site [chemical binding]; other site 498213006652 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 498213006653 substrate binding site [chemical binding]; other site 498213006654 activation loop (A-loop); other site 498213006655 activation loop (A-loop); other site 498213006656 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 498213006657 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 498213006658 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 498213006659 Uncharacterized membrane protein [Function unknown]; Region: COG3949 498213006660 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 498213006661 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 498213006662 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 498213006663 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 498213006664 Ligand binding site [chemical binding]; other site 498213006665 Electron transfer flavoprotein domain; Region: ETF; pfam01012 498213006666 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 498213006667 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 498213006668 active site 498213006669 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 498213006670 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 498213006671 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 498213006672 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 498213006673 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 498213006674 CoA-transferase family III; Region: CoA_transf_3; pfam02515 498213006675 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 498213006676 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 498213006677 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 498213006678 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 498213006679 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 498213006680 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 498213006681 nucleotide binding site [chemical binding]; other site 498213006682 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 498213006683 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213006684 dimer interface [polypeptide binding]; other site 498213006685 putative CheW interface [polypeptide binding]; other site 498213006686 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 498213006687 dimer interface [polypeptide binding]; other site 498213006688 FMN binding site [chemical binding]; other site 498213006689 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 498213006690 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 498213006691 active site 498213006692 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213006693 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 498213006694 Coenzyme A binding pocket [chemical binding]; other site 498213006695 FosX, a fosfomycin resistance protein, catalyzes the addition of a water molecule to the C1 position of the antibiotic with inversion of configuration at C1; Region: FosX; cd08364 498213006696 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 498213006697 dimer interface [polypeptide binding]; other site 498213006698 active site 498213006699 Mn binding site [ion binding]; other site 498213006700 GntP family permease; Region: GntP_permease; pfam02447 498213006701 fructuronate transporter; Provisional; Region: PRK10034; cl15264 498213006702 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 498213006703 Pyridoxal phosphate biosynthesis protein [Coenzyme metabolism]; Region: PdxA; COG1995 498213006704 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 498213006705 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 498213006706 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 498213006707 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 498213006708 CAAX protease self-immunity; Region: Abi; pfam02517 498213006709 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 498213006710 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 498213006711 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 498213006712 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 498213006713 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 498213006714 WHG domain; Region: WHG; pfam13305 498213006715 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 498213006716 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 498213006717 GxGYxY sequence motif in domain of unknown function; Region: GxGYxYP; pfam14323 498213006718 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 498213006719 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 498213006720 putative NAD(P) binding site [chemical binding]; other site 498213006721 catalytic Zn binding site [ion binding]; other site 498213006722 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 498213006723 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 498213006724 ACS interaction site; other site 498213006725 CODH interaction site; other site 498213006726 cubane metal cluster (B-cluster) [ion binding]; other site 498213006727 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 498213006728 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 498213006729 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 498213006730 Transmembrane protein 55A; Region: Tmemb_55A; pfam09788 498213006731 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 498213006732 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 498213006733 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 498213006734 P loop nucleotide binding; other site 498213006735 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 498213006736 switch II; other site 498213006737 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 498213006738 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 498213006739 P loop nucleotide binding; other site 498213006740 switch II; other site 498213006741 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 498213006742 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 498213006743 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 498213006744 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 498213006745 ligand binding site [chemical binding]; other site 498213006746 flagellar motor protein MotA; Validated; Region: PRK08124 498213006747 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 498213006748 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213006749 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 498213006750 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213006751 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 498213006752 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 498213006753 OPT oligopeptide transporter protein; Region: OPT; cl14607 498213006754 putative oligopeptide transporter, OPT family; Region: TIGR00733 498213006755 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 498213006756 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 498213006757 metal binding site [ion binding]; metal-binding site 498213006758 dimer interface [polypeptide binding]; other site 498213006759 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 498213006760 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 498213006761 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 498213006762 catalytic residue [active] 498213006763 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 498213006764 oxidoreductase; Provisional; Region: PRK08017 498213006765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498213006766 NAD(P) binding site [chemical binding]; other site 498213006767 active site 498213006768 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 498213006769 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 498213006770 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 498213006771 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 498213006772 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213006773 Walker A/P-loop; other site 498213006774 ATP binding site [chemical binding]; other site 498213006775 Q-loop/lid; other site 498213006776 ABC transporter signature motif; other site 498213006777 Walker B; other site 498213006778 D-loop; other site 498213006779 H-loop/switch region; other site 498213006780 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213006781 Coenzyme A binding pocket [chemical binding]; other site 498213006782 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 498213006783 MarR family; Region: MarR_2; pfam12802 498213006784 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 498213006785 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 498213006786 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 498213006787 Predicted dehydrogenase [General function prediction only]; Region: COG0579 498213006788 hydroxyglutarate oxidase; Provisional; Region: PRK11728 498213006789 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 498213006790 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 498213006791 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 498213006792 DNA binding residues [nucleotide binding] 498213006793 drug binding residues [chemical binding]; other site 498213006794 dimer interface [polypeptide binding]; other site 498213006795 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 498213006796 Amino acid permease; Region: AA_permease_2; pfam13520 498213006797 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 498213006798 putative ADP-ribose binding site [chemical binding]; other site 498213006799 putative active site [active] 498213006800 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 498213006801 MarR family; Region: MarR_2; cl17246 498213006802 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 498213006803 TIGR03987 family protein; Region: TIGR03987 498213006804 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 498213006805 substrate binding site [chemical binding]; other site 498213006806 multimerization interface [polypeptide binding]; other site 498213006807 ATP binding site [chemical binding]; other site 498213006808 Thiamine-precursor transporter protein (ThiW); Region: ThiW; pfam09512 498213006809 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 498213006810 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213006811 Coenzyme A binding pocket [chemical binding]; other site 498213006812 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 498213006813 Mor transcription activator family; Region: Mor; cl02360 498213006814 AAA domain; Region: AAA_26; pfam13500 498213006815 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 498213006816 biotin synthase; Region: bioB; TIGR00433 498213006817 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 498213006818 FeS/SAM binding site; other site 498213006819 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 498213006820 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 498213006821 hypothetical protein; Provisional; Region: PRK09272 498213006822 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 498213006823 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 498213006824 putative DNA binding site [nucleotide binding]; other site 498213006825 putative Zn2+ binding site [ion binding]; other site 498213006826 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 498213006827 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 498213006828 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 498213006829 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 498213006830 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 498213006831 active site 498213006832 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 498213006833 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 498213006834 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 498213006835 YmaF family; Region: YmaF; pfam12788 498213006836 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 498213006837 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 498213006838 active site 498213006839 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 498213006840 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 498213006841 YmaF family; Region: YmaF; pfam12788 498213006842 hypothetical protein; Provisional; Region: PRK05802 498213006843 FAD/NAD binding domain (electron transfer subunit) of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate...; Region: DHOD_e_trans_like; cd06192 498213006844 FAD binding pocket [chemical binding]; other site 498213006845 FAD binding motif [chemical binding]; other site 498213006846 phosphate binding motif [ion binding]; other site 498213006847 beta-alpha-beta structure motif; other site 498213006848 NAD binding pocket [chemical binding]; other site 498213006849 Iron coordination center [ion binding]; other site 498213006850 methionine sulfoxide reductase B; Provisional; Region: PRK00222 498213006851 SelR domain; Region: SelR; pfam01641 498213006852 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 498213006853 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 498213006854 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 498213006855 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213006856 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 498213006857 Q-loop/lid; other site 498213006858 ABC transporter signature motif; other site 498213006859 Walker B; other site 498213006860 D-loop; other site 498213006861 H-loop/switch region; other site 498213006862 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 498213006863 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 498213006864 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213006865 Walker A/P-loop; other site 498213006866 ATP binding site [chemical binding]; other site 498213006867 Q-loop/lid; other site 498213006868 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 498213006869 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213006870 serine racemase; Region: PLN02970 498213006871 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 498213006872 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 498213006873 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 498213006874 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 498213006875 Walker A/P-loop; other site 498213006876 ATP binding site [chemical binding]; other site 498213006877 Q-loop/lid; other site 498213006878 ABC transporter signature motif; other site 498213006879 Walker B; other site 498213006880 D-loop; other site 498213006881 H-loop/switch region; other site 498213006882 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213006883 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 498213006884 dimer interface [polypeptide binding]; other site 498213006885 phosphorylation site [posttranslational modification] 498213006886 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 498213006887 ATP binding site [chemical binding]; other site 498213006888 Mg2+ binding site [ion binding]; other site 498213006889 G-X-G motif; other site 498213006890 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213006891 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 498213006892 active site 498213006893 phosphorylation site [posttranslational modification] 498213006894 intermolecular recognition site; other site 498213006895 dimerization interface [polypeptide binding]; other site 498213006896 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 498213006897 DNA binding site [nucleotide binding] 498213006898 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 498213006899 active site 498213006900 catalytic site [active] 498213006901 substrate binding site [chemical binding]; other site 498213006902 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 498213006903 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 498213006904 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 498213006905 non-specific DNA binding site [nucleotide binding]; other site 498213006906 salt bridge; other site 498213006907 sequence-specific DNA binding site [nucleotide binding]; other site 498213006908 transglutaminase; Provisional; Region: tgl; PRK03187 498213006909 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 498213006910 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 498213006911 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 498213006912 tetrameric interface [polypeptide binding]; other site 498213006913 activator binding site; other site 498213006914 NADP binding site [chemical binding]; other site 498213006915 substrate binding site [chemical binding]; other site 498213006916 catalytic residues [active] 498213006917 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 498213006918 FAD binding pocket [chemical binding]; other site 498213006919 FAD binding motif [chemical binding]; other site 498213006920 phosphate binding motif [ion binding]; other site 498213006921 beta-alpha-beta structure motif; other site 498213006922 NAD binding pocket [chemical binding]; other site 498213006923 Heme binding pocket [chemical binding]; other site 498213006924 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 498213006925 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 498213006926 active site 498213006927 putative substrate binding pocket [chemical binding]; other site 498213006928 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 498213006929 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 498213006930 active site 498213006931 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 498213006932 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 498213006933 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498213006934 Spore germination protein; Region: Spore_permease; pfam03845 498213006935 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 498213006936 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 498213006937 active site 498213006938 NTP binding site [chemical binding]; other site 498213006939 metal binding triad [ion binding]; metal-binding site 498213006940 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 498213006941 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498213006942 Zn2+ binding site [ion binding]; other site 498213006943 Mg2+ binding site [ion binding]; other site 498213006944 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 498213006945 Predicted transcriptional regulators [Transcription]; Region: COG1695 498213006946 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 498213006947 Glucose inhibited division protein A; Region: GIDA; pfam01134 498213006948 Fic/DOC family; Region: Fic; cl00960 498213006949 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213006950 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 498213006951 dimer interface [polypeptide binding]; other site 498213006952 phosphorylation site [posttranslational modification] 498213006953 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 498213006954 ATP binding site [chemical binding]; other site 498213006955 Mg2+ binding site [ion binding]; other site 498213006956 G-X-G motif; other site 498213006957 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213006958 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 498213006959 active site 498213006960 phosphorylation site [posttranslational modification] 498213006961 intermolecular recognition site; other site 498213006962 dimerization interface [polypeptide binding]; other site 498213006963 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 498213006964 DNA binding site [nucleotide binding] 498213006965 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 498213006966 hypothetical protein; Provisional; Region: PRK06921 498213006967 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 498213006968 Walker A motif; other site 498213006969 ATP binding site [chemical binding]; other site 498213006970 Walker B motif; other site 498213006971 arginine finger; other site 498213006972 Glucose inhibited division protein A; Region: GIDA; pfam01134 498213006973 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 498213006974 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 498213006975 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 498213006976 tetramer interface [polypeptide binding]; other site 498213006977 active site 498213006978 Uncharacterized conserved protein [Function unknown]; Region: COG2155 498213006979 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 498213006980 dimerization domain swap beta strand [polypeptide binding]; other site 498213006981 regulatory protein interface [polypeptide binding]; other site 498213006982 active site 498213006983 regulatory phosphorylation site [posttranslational modification]; other site 498213006984 aspartate aminotransferase; Provisional; Region: PRK05764 498213006985 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 498213006986 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213006987 homodimer interface [polypeptide binding]; other site 498213006988 catalytic residue [active] 498213006989 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 498213006990 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 498213006991 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 498213006992 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 498213006993 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 498213006994 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498213006995 Zn2+ binding site [ion binding]; other site 498213006996 Mg2+ binding site [ion binding]; other site 498213006997 recombinase A; Provisional; Region: recA; PRK09354 498213006998 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 498213006999 hexamer interface [polypeptide binding]; other site 498213007000 Walker A motif; other site 498213007001 ATP binding site [chemical binding]; other site 498213007002 Walker B motif; other site 498213007003 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 498213007004 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 498213007005 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 498213007006 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 498213007007 Tetraspanin family; Region: Tetraspannin; pfam00335 498213007008 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 498213007009 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 498213007010 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 498213007011 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 498213007012 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 498213007013 active site 498213007014 aspartate kinase I; Reviewed; Region: PRK08210 498213007015 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 498213007016 nucleotide binding site [chemical binding]; other site 498213007017 substrate binding site [chemical binding]; other site 498213007018 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 498213007019 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_2; cd04937 498213007020 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 498213007021 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 498213007022 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 498213007023 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 498213007024 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 498213007025 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 498213007026 RNase E interface [polypeptide binding]; other site 498213007027 trimer interface [polypeptide binding]; other site 498213007028 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 498213007029 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 498213007030 RNase E interface [polypeptide binding]; other site 498213007031 trimer interface [polypeptide binding]; other site 498213007032 active site 498213007033 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 498213007034 putative nucleic acid binding region [nucleotide binding]; other site 498213007035 G-X-X-G motif; other site 498213007036 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 498213007037 RNA binding site [nucleotide binding]; other site 498213007038 domain interface; other site 498213007039 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 498213007040 16S/18S rRNA binding site [nucleotide binding]; other site 498213007041 S13e-L30e interaction site [polypeptide binding]; other site 498213007042 25S rRNA binding site [nucleotide binding]; other site 498213007043 FAD synthase [Coenzyme metabolism]; Region: RibF; COG0196 498213007044 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 498213007045 active site 498213007046 Riboflavin kinase; Region: Flavokinase; pfam01687 498213007047 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 498213007048 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 498213007049 RNA binding site [nucleotide binding]; other site 498213007050 active site 498213007051 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 498213007052 DHH family; Region: DHH; pfam01368 498213007053 DHHA1 domain; Region: DHHA1; pfam02272 498213007054 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 498213007055 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 498213007056 translation initiation factor IF-2; Region: IF-2; TIGR00487 498213007057 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 498213007058 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 498213007059 G1 box; other site 498213007060 putative GEF interaction site [polypeptide binding]; other site 498213007061 GTP/Mg2+ binding site [chemical binding]; other site 498213007062 Switch I region; other site 498213007063 G2 box; other site 498213007064 G3 box; other site 498213007065 Switch II region; other site 498213007066 G4 box; other site 498213007067 G5 box; other site 498213007068 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 498213007069 Translation-initiation factor 2; Region: IF-2; pfam11987 498213007070 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 498213007071 ribosomal protein L7Ae family protein; Provisional; Region: PRK05583 498213007072 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 498213007073 putative RNA binding cleft [nucleotide binding]; other site 498213007074 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 498213007075 NusA N-terminal domain; Region: NusA_N; pfam08529 498213007076 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 498213007077 RNA binding site [nucleotide binding]; other site 498213007078 homodimer interface [polypeptide binding]; other site 498213007079 NusA-like KH domain; Region: KH_5; pfam13184 498213007080 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 498213007081 G-X-X-G motif; other site 498213007082 ribosome maturation protein RimP; Reviewed; Region: PRK00092 498213007083 Sm and related proteins; Region: Sm_like; cl00259 498213007084 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 498213007085 putative oligomer interface [polypeptide binding]; other site 498213007086 putative RNA binding site [nucleotide binding]; other site 498213007087 DNA polymerase III PolC; Validated; Region: polC; PRK00448 498213007088 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 498213007089 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 498213007090 generic binding surface II; other site 498213007091 generic binding surface I; other site 498213007092 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 498213007093 active site 498213007094 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 498213007095 active site 498213007096 catalytic site [active] 498213007097 substrate binding site [chemical binding]; other site 498213007098 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 498213007099 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 498213007100 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 498213007101 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 498213007102 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 498213007103 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 498213007104 active site 498213007105 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 498213007106 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 498213007107 putative substrate binding region [chemical binding]; other site 498213007108 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 498213007109 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 498213007110 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 498213007111 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 498213007112 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 498213007113 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 498213007114 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 498213007115 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 498213007116 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 498213007117 catalytic residue [active] 498213007118 putative FPP diphosphate binding site; other site 498213007119 putative FPP binding hydrophobic cleft; other site 498213007120 dimer interface [polypeptide binding]; other site 498213007121 putative IPP diphosphate binding site; other site 498213007122 ribosome recycling factor; Reviewed; Region: frr; PRK00083 498213007123 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 498213007124 hinge region; other site 498213007125 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 498213007126 putative nucleotide binding site [chemical binding]; other site 498213007127 uridine monophosphate binding site [chemical binding]; other site 498213007128 homohexameric interface [polypeptide binding]; other site 498213007129 elongation factor Ts; Provisional; Region: tsf; PRK09377 498213007130 UBA/TS-N domain; Region: UBA; pfam00627 498213007131 Elongation factor TS; Region: EF_TS; pfam00889 498213007132 Elongation factor TS; Region: EF_TS; pfam00889 498213007133 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 498213007134 rRNA interaction site [nucleotide binding]; other site 498213007135 S8 interaction site; other site 498213007136 putative laminin-1 binding site; other site 498213007137 transcriptional repressor CodY; Validated; Region: PRK04158 498213007138 CodY GAF-like domain; Region: CodY; pfam06018 498213007139 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 498213007140 DNA topoisomerase I; Validated; Region: PRK05582 498213007141 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 498213007142 active site 498213007143 interdomain interaction site; other site 498213007144 putative metal-binding site [ion binding]; other site 498213007145 nucleotide binding site [chemical binding]; other site 498213007146 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 498213007147 domain I; other site 498213007148 DNA binding groove [nucleotide binding] 498213007149 phosphate binding site [ion binding]; other site 498213007150 domain II; other site 498213007151 domain III; other site 498213007152 nucleotide binding site [chemical binding]; other site 498213007153 catalytic site [active] 498213007154 domain IV; other site 498213007155 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 498213007156 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 498213007157 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 498213007158 DNA protecting protein DprA; Region: dprA; TIGR00732 498213007159 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 498213007160 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 498213007161 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 498213007162 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 498213007163 Walker A motif; other site 498213007164 ATP binding site [chemical binding]; other site 498213007165 Walker B motif; other site 498213007166 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 498213007167 hypothetical protein; Reviewed; Region: PRK12497 498213007168 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 498213007169 RNA/DNA hybrid binding site [nucleotide binding]; other site 498213007170 active site 498213007171 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 498213007172 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 498213007173 GTP/Mg2+ binding site [chemical binding]; other site 498213007174 G4 box; other site 498213007175 G5 box; other site 498213007176 G1 box; other site 498213007177 Switch I region; other site 498213007178 G2 box; other site 498213007179 G3 box; other site 498213007180 Switch II region; other site 498213007181 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 498213007182 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 498213007183 Catalytic site [active] 498213007184 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 498213007185 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 498213007186 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 498213007187 RimM N-terminal domain; Region: RimM; pfam01782 498213007188 PRC-barrel domain; Region: PRC; pfam05239 498213007189 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 498213007190 hypothetical protein; Provisional; Region: PRK00468 498213007191 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 498213007192 signal recognition particle protein; Provisional; Region: PRK10867 498213007193 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 498213007194 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 498213007195 P loop; other site 498213007196 GTP binding site [chemical binding]; other site 498213007197 Signal peptide binding domain; Region: SRP_SPB; pfam02978 498213007198 putative DNA-binding protein; Validated; Region: PRK00118 498213007199 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 498213007200 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 498213007201 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 498213007202 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 498213007203 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 498213007204 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 498213007205 Walker A/P-loop; other site 498213007206 ATP binding site [chemical binding]; other site 498213007207 Q-loop/lid; other site 498213007208 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 498213007209 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 498213007210 Q-loop/lid; other site 498213007211 ABC transporter signature motif; other site 498213007212 Walker B; other site 498213007213 D-loop; other site 498213007214 H-loop/switch region; other site 498213007215 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 498213007216 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 498213007217 FeS/SAM binding site; other site 498213007218 ribonuclease III; Reviewed; Region: rnc; PRK00102 498213007219 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 498213007220 dimerization interface [polypeptide binding]; other site 498213007221 active site 498213007222 metal binding site [ion binding]; metal-binding site 498213007223 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 498213007224 dsRNA binding site [nucleotide binding]; other site 498213007225 acyl carrier protein; Provisional; Region: acpP; PRK00982 498213007226 putative phosphate acyltransferase; Provisional; Region: PRK05331 498213007227 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 498213007228 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 498213007229 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 498213007230 propionate/acetate kinase; Provisional; Region: PRK12379 498213007231 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 498213007232 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 498213007233 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 498213007234 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 498213007235 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 498213007236 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 498213007237 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 498213007238 Cache domain; Region: Cache_1; pfam02743 498213007239 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 498213007240 dimerization interface [polypeptide binding]; other site 498213007241 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498213007242 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213007243 dimer interface [polypeptide binding]; other site 498213007244 putative CheW interface [polypeptide binding]; other site 498213007245 Uncharacterized conserved protein [Function unknown]; Region: COG1915 498213007246 Saccharopine dehydrogenase N-terminal domain; Region: SDH_N_domain; cl04528 498213007247 Uncharacterized conserved protein [Function unknown]; Region: COG1915 498213007248 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 498213007249 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 498213007250 proline racemase; Provisional; Region: PRK13969 498213007251 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 498213007252 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 498213007253 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 498213007254 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 498213007255 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 498213007256 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 498213007257 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 498213007258 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 498213007259 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 498213007260 SLBB domain; Region: SLBB; pfam10531 498213007261 Predicted permease; Region: DUF318; cl17795 498213007262 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 498213007263 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 498213007264 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 498213007265 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 498213007266 putative active site [active] 498213007267 heme pocket [chemical binding]; other site 498213007268 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 498213007269 Walker A motif; other site 498213007270 ATP binding site [chemical binding]; other site 498213007271 Walker B motif; other site 498213007272 arginine finger; other site 498213007273 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 498213007274 hypothetical protein; Provisional; Region: PRK13670 498213007275 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 498213007276 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 498213007277 Nucleoside recognition; Region: Gate; pfam07670 498213007278 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 498213007279 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 498213007280 active site 498213007281 (T/H)XGH motif; other site 498213007282 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 498213007283 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 498213007284 S-adenosylmethionine binding site [chemical binding]; other site 498213007285 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 498213007286 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 498213007287 ssDNA binding site; other site 498213007288 generic binding surface II; other site 498213007289 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 498213007290 ATP binding site [chemical binding]; other site 498213007291 putative Mg++ binding site [ion binding]; other site 498213007292 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 498213007293 nucleotide binding region [chemical binding]; other site 498213007294 ATP-binding site [chemical binding]; other site 498213007295 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 498213007296 DAK2 domain; Region: Dak2; pfam02734 498213007297 Asp23 family; Region: Asp23; pfam03780 498213007298 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 498213007299 Thiamine pyrophosphokinase; Region: TPK; cd07995 498213007300 active site 498213007301 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 498213007302 dimerization interface [polypeptide binding]; other site 498213007303 thiamine binding site [chemical binding]; other site 498213007304 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 498213007305 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 498213007306 substrate binding site [chemical binding]; other site 498213007307 hexamer interface [polypeptide binding]; other site 498213007308 metal binding site [ion binding]; metal-binding site 498213007309 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 498213007310 GTPase RsgA; Reviewed; Region: PRK00098 498213007311 RNA binding site [nucleotide binding]; other site 498213007312 homodimer interface [polypeptide binding]; other site 498213007313 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 498213007314 GTPase/Zn-binding domain interface [polypeptide binding]; other site 498213007315 GTP/Mg2+ binding site [chemical binding]; other site 498213007316 G4 box; other site 498213007317 G5 box; other site 498213007318 G1 box; other site 498213007319 Switch I region; other site 498213007320 G2 box; other site 498213007321 G3 box; other site 498213007322 Switch II region; other site 498213007323 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 498213007324 Catalytic domain of Protein Kinases; Region: PKc; cd00180 498213007325 active site 498213007326 ATP binding site [chemical binding]; other site 498213007327 substrate binding site [chemical binding]; other site 498213007328 activation loop (A-loop); other site 498213007329 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 498213007330 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 498213007331 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 498213007332 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 498213007333 active site 498213007334 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 498213007335 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 498213007336 FeS/SAM binding site; other site 498213007337 16S rRNA methyltransferase B; Provisional; Region: PRK14902 498213007338 NusB family; Region: NusB; pfam01029 498213007339 putative RNA binding site [nucleotide binding]; other site 498213007340 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 498213007341 S-adenosylmethionine binding site [chemical binding]; other site 498213007342 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 498213007343 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 498213007344 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 498213007345 putative active site [active] 498213007346 substrate binding site [chemical binding]; other site 498213007347 putative cosubstrate binding site; other site 498213007348 catalytic site [active] 498213007349 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 498213007350 substrate binding site [chemical binding]; other site 498213007351 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 498213007352 active site 498213007353 catalytic residues [active] 498213007354 metal binding site [ion binding]; metal-binding site 498213007355 primosome assembly protein PriA; Validated; Region: PRK05580 498213007356 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 498213007357 ATP binding site [chemical binding]; other site 498213007358 putative Mg++ binding site [ion binding]; other site 498213007359 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 498213007360 nucleotide binding region [chemical binding]; other site 498213007361 ATP-binding site [chemical binding]; other site 498213007362 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 498213007363 Flavoprotein; Region: Flavoprotein; pfam02441 498213007364 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 498213007365 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 498213007366 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 498213007367 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 498213007368 catalytic site [active] 498213007369 G-X2-G-X-G-K; other site 498213007370 hypothetical protein; Provisional; Region: PRK04323 498213007371 hypothetical protein; Provisional; Region: PRK11820 498213007372 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 498213007373 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 498213007374 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 498213007375 active site 498213007376 homotetramer interface [polypeptide binding]; other site 498213007377 homodimer interface [polypeptide binding]; other site 498213007378 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 498213007379 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 498213007380 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 498213007381 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 498213007382 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 498213007383 GTP-binding protein Der; Reviewed; Region: PRK00093 498213007384 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 498213007385 G1 box; other site 498213007386 GTP/Mg2+ binding site [chemical binding]; other site 498213007387 Switch I region; other site 498213007388 G2 box; other site 498213007389 Switch II region; other site 498213007390 G3 box; other site 498213007391 G4 box; other site 498213007392 G5 box; other site 498213007393 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 498213007394 G1 box; other site 498213007395 GTP/Mg2+ binding site [chemical binding]; other site 498213007396 Switch I region; other site 498213007397 G2 box; other site 498213007398 G3 box; other site 498213007399 Switch II region; other site 498213007400 G4 box; other site 498213007401 G5 box; other site 498213007402 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 498213007403 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 498213007404 Protein of unknown function (DUF512); Region: DUF512; pfam04459 498213007405 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 498213007406 PhoU domain; Region: PhoU; pfam01895 498213007407 PhoU domain; Region: PhoU; pfam01895 498213007408 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 498213007409 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 498213007410 Walker A/P-loop; other site 498213007411 ATP binding site [chemical binding]; other site 498213007412 Q-loop/lid; other site 498213007413 ABC transporter signature motif; other site 498213007414 Walker B; other site 498213007415 D-loop; other site 498213007416 H-loop/switch region; other site 498213007417 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 498213007418 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213007419 dimer interface [polypeptide binding]; other site 498213007420 conserved gate region; other site 498213007421 putative PBP binding loops; other site 498213007422 ABC-ATPase subunit interface; other site 498213007423 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 498213007424 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213007425 dimer interface [polypeptide binding]; other site 498213007426 conserved gate region; other site 498213007427 putative PBP binding loops; other site 498213007428 ABC-ATPase subunit interface; other site 498213007429 PBP superfamily domain; Region: PBP_like_2; cl17296 498213007430 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 498213007431 dimerization interface [polypeptide binding]; other site 498213007432 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 498213007433 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 498213007434 putative active site [active] 498213007435 heme pocket [chemical binding]; other site 498213007436 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 498213007437 dimer interface [polypeptide binding]; other site 498213007438 phosphorylation site [posttranslational modification] 498213007439 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 498213007440 ATP binding site [chemical binding]; other site 498213007441 Mg2+ binding site [ion binding]; other site 498213007442 G-X-G motif; other site 498213007443 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213007444 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 498213007445 active site 498213007446 phosphorylation site [posttranslational modification] 498213007447 intermolecular recognition site; other site 498213007448 dimerization interface [polypeptide binding]; other site 498213007449 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 498213007450 DNA binding site [nucleotide binding] 498213007451 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 498213007452 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 498213007453 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 498213007454 ATP cone domain; Region: ATP-cone; pfam03477 498213007455 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 498213007456 sporulation sigma factor SigG; Reviewed; Region: PRK08215 498213007457 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498213007458 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 498213007459 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 498213007460 DNA binding residues [nucleotide binding] 498213007461 sporulation sigma factor SigE; Reviewed; Region: PRK08301 498213007462 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498213007463 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 498213007464 DNA binding residues [nucleotide binding] 498213007465 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 498213007466 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 498213007467 cell division protein FtsZ; Validated; Region: PRK09330 498213007468 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 498213007469 nucleotide binding site [chemical binding]; other site 498213007470 SulA interaction site; other site 498213007471 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 498213007472 Cell division protein FtsA; Region: FtsA; smart00842 498213007473 Cell division protein FtsA; Region: FtsA; pfam14450 498213007474 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 498213007475 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 498213007476 DXD motif; other site 498213007477 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 498213007478 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 498213007479 Walker A motif; other site 498213007480 ATP binding site [chemical binding]; other site 498213007481 Walker B motif; other site 498213007482 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 498213007483 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 498213007484 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 498213007485 shikimate binding site; other site 498213007486 NAD(P) binding site [chemical binding]; other site 498213007487 DNA binding residues [nucleotide binding] 498213007488 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 498213007489 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 498213007490 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 498213007491 non-specific DNA binding site [nucleotide binding]; other site 498213007492 salt bridge; other site 498213007493 sequence-specific DNA binding site [nucleotide binding]; other site 498213007494 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 498213007495 non-specific DNA binding site [nucleotide binding]; other site 498213007496 salt bridge; other site 498213007497 sequence-specific DNA binding site [nucleotide binding]; other site 498213007498 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 498213007499 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 498213007500 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 498213007501 Walker A motif; other site 498213007502 ATP binding site [chemical binding]; other site 498213007503 Walker B motif; other site 498213007504 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 498213007505 non-specific DNA binding site [nucleotide binding]; other site 498213007506 salt bridge; other site 498213007507 sequence-specific DNA binding site [nucleotide binding]; other site 498213007508 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 498213007509 Resolvase, N terminal domain; Region: Resolvase; smart00857 498213007510 catalytic residues [active] 498213007511 catalytic nucleophile [active] 498213007512 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 498213007513 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 498213007514 active site 498213007515 metal binding site [ion binding]; metal-binding site 498213007516 Bacterial SH3 domain; Region: SH3_3; pfam08239 498213007517 Haemolysin XhlA; Region: XhlA; pfam10779 498213007518 Phage tail protein; Region: Sipho_tail; pfam05709 498213007519 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 498213007520 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 498213007521 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 498213007522 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 498213007523 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 498213007524 oligomerization interface [polypeptide binding]; other site 498213007525 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 498213007526 Phage capsid family; Region: Phage_capsid; pfam05065 498213007527 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 498213007528 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 498213007529 oligomer interface [polypeptide binding]; other site 498213007530 active site residues [active] 498213007531 Phage portal protein; Region: Phage_portal; pfam04860 498213007532 Phage-related protein [Function unknown]; Region: COG4695; cl01923 498213007533 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 498213007534 Phage terminase, small subunit; Region: Terminase_4; pfam05119 498213007535 INT_SG3, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 3, catalytic domain. The CD contains various predicted bacterial and phage integrase/recombinase sequences for which not much experimental characterization is available; Region: INT_SG3_C; cd01186 498213007536 Int/Topo IB signature motif; other site 498213007537 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 498213007538 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 498213007539 active site 498213007540 DNA binding site [nucleotide binding] 498213007541 Int/Topo IB signature motif; other site 498213007542 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 498213007543 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in uncharacterized protein from Archaeoglobus fulgidus (Af0060) and its bacterial homologs; Region: NTP-PPase_Af0060_like; cd11533 498213007544 homodimer interface [polypeptide binding]; other site 498213007545 metal binding site [ion binding]; metal-binding site 498213007546 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 498213007547 Walker A motif; other site 498213007548 ATP binding site [chemical binding]; other site 498213007549 Walker B motif; other site 498213007550 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; cl09889 498213007551 ORF6N domain; Region: ORF6N; pfam10543 498213007552 ORF6C domain; Region: ORF6C; pfam10552 498213007553 K-Cl cotransporter; Region: 2a30; TIGR00930 498213007554 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 498213007555 non-specific DNA binding site [nucleotide binding]; other site 498213007556 salt bridge; other site 498213007557 sequence-specific DNA binding site [nucleotide binding]; other site 498213007558 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 498213007559 non-specific DNA binding site [nucleotide binding]; other site 498213007560 salt bridge; other site 498213007561 sequence-specific DNA binding site [nucleotide binding]; other site 498213007562 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 498213007563 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 498213007564 catalytic residues [active] 498213007565 catalytic nucleophile [active] 498213007566 Recombinase; Region: Recombinase; pfam07508 498213007567 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 498213007568 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498213007569 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 498213007570 Domain of unknown function (DUF2382); Region: DUF2382; pfam09557 498213007571 conserved domain; Region: TIGR02271 498213007572 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 498213007573 RecT family; Region: RecT; pfam03837 498213007574 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 498213007575 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 498213007576 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 498213007577 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 498213007578 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 498213007579 Sugar specificity; other site 498213007580 Pyrimidine base specificity; other site 498213007581 ATP-binding site [chemical binding]; other site 498213007582 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 498213007583 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 498213007584 Peptidase family U32; Region: Peptidase_U32; pfam01136 498213007585 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 498213007586 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 498213007587 S-adenosylmethionine binding site [chemical binding]; other site 498213007588 YceG-like family; Region: YceG; pfam02618 498213007589 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 498213007590 dimerization interface [polypeptide binding]; other site 498213007591 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 498213007592 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 498213007593 G1 box; other site 498213007594 putative GEF interaction site [polypeptide binding]; other site 498213007595 GTP/Mg2+ binding site [chemical binding]; other site 498213007596 Switch I region; other site 498213007597 G2 box; other site 498213007598 G3 box; other site 498213007599 Switch II region; other site 498213007600 G4 box; other site 498213007601 G5 box; other site 498213007602 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 498213007603 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 498213007604 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 498213007605 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 498213007606 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 498213007607 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 498213007608 metal binding site 2 [ion binding]; metal-binding site 498213007609 putative DNA binding helix; other site 498213007610 metal binding site 1 [ion binding]; metal-binding site 498213007611 dimer interface [polypeptide binding]; other site 498213007612 structural Zn2+ binding site [ion binding]; other site 498213007613 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 498213007614 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 498213007615 hypothetical protein; Provisional; Region: PRK05473 498213007616 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 498213007617 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 498213007618 motif 1; other site 498213007619 active site 498213007620 motif 2; other site 498213007621 motif 3; other site 498213007622 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 498213007623 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 498213007624 Domain of unknown function DUF20; Region: UPF0118; pfam01594 498213007625 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 498213007626 PRC-barrel domain; Region: PRC; pfam05239 498213007627 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 498213007628 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 498213007629 trimerization site [polypeptide binding]; other site 498213007630 active site 498213007631 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 498213007632 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 498213007633 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 498213007634 catalytic residue [active] 498213007635 Transcriptional regulator; Region: Rrf2; cl17282 498213007636 Rrf2 family protein; Region: rrf2_super; TIGR00738 498213007637 recombination factor protein RarA; Reviewed; Region: PRK13342 498213007638 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 498213007639 Walker A motif; other site 498213007640 ATP binding site [chemical binding]; other site 498213007641 Walker B motif; other site 498213007642 arginine finger; other site 498213007643 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 498213007644 histidinol-phosphatase; Provisional; Region: PRK05588 498213007645 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 498213007646 active site 498213007647 Predicted permeases [General function prediction only]; Region: COG0679 498213007648 EDD domain protein, DegV family; Region: DegV; TIGR00762 498213007649 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 498213007650 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 498213007651 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 498213007652 CPxP motif; other site 498213007653 DsrE/DsrF-like family; Region: DrsE; pfam02635 498213007654 ornithine cyclodeaminase; Validated; Region: PRK08618 498213007655 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 498213007656 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 498213007657 amino acid carrier protein; Region: agcS; TIGR00835 498213007658 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 498213007659 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 498213007660 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 498213007661 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 498213007662 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 498213007663 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 498213007664 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 498213007665 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 498213007666 dimerization interface [polypeptide binding]; other site 498213007667 ATP binding site [chemical binding]; other site 498213007668 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 498213007669 dimerization interface [polypeptide binding]; other site 498213007670 ATP binding site [chemical binding]; other site 498213007671 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 498213007672 putative active site [active] 498213007673 catalytic triad [active] 498213007674 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 498213007675 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 498213007676 phosphoenolpyruvate synthase; Validated; Region: PRK06241 498213007677 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 498213007678 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 498213007679 Phosphopantetheine attachment site; Region: PP-binding; cl09936 498213007680 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 498213007681 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 498213007682 active site 498213007683 AMP binding site [chemical binding]; other site 498213007684 acyl-activating enzyme (AAE) consensus motif; other site 498213007685 CoA binding site [chemical binding]; other site 498213007686 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 498213007687 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 498213007688 dimer interface [polypeptide binding]; other site 498213007689 active site 498213007690 CoA binding pocket [chemical binding]; other site 498213007691 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 498213007692 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 498213007693 AMP-binding enzyme; Region: AMP-binding; pfam00501 498213007694 acyl-activating enzyme (AAE) consensus motif; other site 498213007695 AMP binding site [chemical binding]; other site 498213007696 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 498213007697 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 498213007698 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213007699 Coenzyme A binding pocket [chemical binding]; other site 498213007700 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 498213007701 Ligand Binding Site [chemical binding]; other site 498213007702 hypothetical protein; Validated; Region: PRK07080 498213007703 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 498213007704 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 498213007705 ornithine carbamoyltransferase; Provisional; Region: PRK04284 498213007706 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 498213007707 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 498213007708 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 498213007709 carbamate kinase; Reviewed; Region: PRK12686 498213007710 putative substrate binding site [chemical binding]; other site 498213007711 nucleotide binding site [chemical binding]; other site 498213007712 nucleotide binding site [chemical binding]; other site 498213007713 homodimer interface [polypeptide binding]; other site 498213007714 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 498213007715 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 498213007716 dimer interface [polypeptide binding]; other site 498213007717 active site 498213007718 glycine-pyridoxal phosphate binding site [chemical binding]; other site 498213007719 folate binding site [chemical binding]; other site 498213007720 Uncharacterized conserved protein [Function unknown]; Region: COG2966 498213007721 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 498213007722 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 498213007723 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 498213007724 putative homodimer interface [polypeptide binding]; other site 498213007725 putative homotetramer interface [polypeptide binding]; other site 498213007726 putative allosteric switch controlling residues; other site 498213007727 putative metal binding site [ion binding]; other site 498213007728 putative homodimer-homodimer interface [polypeptide binding]; other site 498213007729 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 498213007730 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 498213007731 active site 498213007732 motif I; other site 498213007733 motif II; other site 498213007734 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 498213007735 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 498213007736 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 498213007737 active site 498213007738 nucleotide binding site [chemical binding]; other site 498213007739 HIGH motif; other site 498213007740 KMSKS motif; other site 498213007741 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 498213007742 NAD(P) binding site [chemical binding]; other site 498213007743 LDH/MDH dimer interface [polypeptide binding]; other site 498213007744 substrate binding site [chemical binding]; other site 498213007745 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 498213007746 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 498213007747 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 498213007748 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 498213007749 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 498213007750 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 498213007751 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 498213007752 oligomer interface [polypeptide binding]; other site 498213007753 putative active site [active] 498213007754 metal binding site [ion binding]; metal-binding site 498213007755 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 498213007756 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 498213007757 oligomer interface [polypeptide binding]; other site 498213007758 metal binding site [ion binding]; metal-binding site 498213007759 metal binding site [ion binding]; metal-binding site 498213007760 putative Cl binding site [ion binding]; other site 498213007761 aspartate ring; other site 498213007762 basic sphincter; other site 498213007763 hydrophobic gate; other site 498213007764 periplasmic entrance; other site 498213007765 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 498213007766 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 498213007767 HPr kinase/phosphorylase; Provisional; Region: PRK05428 498213007768 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 498213007769 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 498213007770 Hpr binding site; other site 498213007771 active site 498213007772 homohexamer subunit interaction site [polypeptide binding]; other site 498213007773 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4224 498213007774 Uncharacterized conserved protein [Function unknown]; Region: COG0398 498213007775 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 498213007776 Uncharacterized conserved protein [Function unknown]; Region: COG0398 498213007777 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 498213007778 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 498213007779 Cysteine-rich domain; Region: CCG; pfam02754 498213007780 Cysteine-rich domain; Region: CCG; pfam02754 498213007781 Phosphotransferase enzyme family; Region: APH; pfam01636 498213007782 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 498213007783 active site 498213007784 ATP binding site [chemical binding]; other site 498213007785 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 498213007786 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 498213007787 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 498213007788 Probable Catalytic site; other site 498213007789 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 498213007790 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 498213007791 putative active site [active] 498213007792 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 498213007793 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 498213007794 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 498213007795 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 498213007796 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 498213007797 active site 498213007798 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 498213007799 active site 498213007800 catalytic residues [active] 498213007801 metal binding site [ion binding]; metal-binding site 498213007802 V-type ATP synthase subunit D; Reviewed; Region: PRK00373 498213007803 V-type ATP synthase subunit B; Provisional; Region: PRK04196 498213007804 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 498213007805 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 498213007806 Walker A motif homologous position; other site 498213007807 Walker B motif; other site 498213007808 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 498213007809 V-type ATP synthase subunit A; Provisional; Region: PRK04192 498213007810 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 498213007811 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 498213007812 Walker A motif/ATP binding site; other site 498213007813 Walker B motif; other site 498213007814 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 498213007815 V-type ATP synthase subunit F; Provisional; Region: PRK01395 498213007816 V-type ATP synthase subunit C; Provisional; Region: PRK01198 498213007817 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 498213007818 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 498213007819 V-type ATP synthase subunit E; Provisional; Region: PRK03963; cl17074 498213007820 V-type ATP synthase subunit K; Validated; Region: PRK06558 498213007821 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 498213007822 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 498213007823 V-type ATP synthase subunit I; Validated; Region: PRK05771 498213007824 V-type ATP synthase subunit H; Validated; Region: PRK08404 498213007825 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 498213007826 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 498213007827 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 498213007828 Zinc dependent phospholipase C (alpha toxin); Region: Zn_dep_PLPC; cd11009 498213007829 Zn binding site [ion binding]; other site 498213007830 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 498213007831 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 498213007832 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 498213007833 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 498213007834 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 498213007835 Soluble P-type ATPase [General function prediction only]; Region: COG4087 498213007836 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 498213007837 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 498213007838 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 498213007839 DRTGG domain; Region: DRTGG; pfam07085 498213007840 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 498213007841 DHH family; Region: DHH; pfam01368 498213007842 DHHA2 domain; Region: DHHA2; pfam02833 498213007843 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12817 498213007844 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 498213007845 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 498213007846 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12818 498213007847 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 498213007848 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 498213007849 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 498213007850 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498213007851 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 498213007852 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 498213007853 DNA binding residues [nucleotide binding] 498213007854 Flagellar protein YcgR; Region: YcgR_2; pfam12945 498213007855 PilZ domain; Region: PilZ; pfam07238 498213007856 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 498213007857 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 498213007858 P-loop; other site 498213007859 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 498213007860 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 498213007861 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 498213007862 FHIPEP family; Region: FHIPEP; pfam00771 498213007863 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional; Region: PRK12772 498213007864 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 498213007865 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 498213007866 Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliQ; COG1987 498213007867 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 498213007868 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 498213007869 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 498213007870 flagellar motor protein MotS; Reviewed; Region: PRK06925 498213007871 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 498213007872 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 498213007873 ligand binding site [chemical binding]; other site 498213007874 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 498213007875 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 498213007876 Flagellar protein (FlbD); Region: FlbD; pfam06289 498213007877 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 498213007878 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 498213007879 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 498213007880 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 498213007881 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 498213007882 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 498213007883 Flagellar FliJ protein; Region: FliJ; pfam02050 498213007884 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 498213007885 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 498213007886 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 498213007887 Walker A motif/ATP binding site; other site 498213007888 Walker B motif; other site 498213007889 Flagellar assembly protein FliH; Region: FliH; pfam02108 498213007890 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 498213007891 FliG C-terminal domain; Region: FliG_C; pfam01706 498213007892 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 498213007893 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 498213007894 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 498213007895 flagellar hook-basal body protein FliE; Provisional; Region: fliE; PRK12728 498213007896 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12630 498213007897 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 498213007898 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 498213007899 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12623 498213007900 flagellin; Provisional; Region: PRK12804 498213007901 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 498213007902 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 498213007903 argininosuccinate lyase; Provisional; Region: PRK00855 498213007904 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 498213007905 active sites [active] 498213007906 tetramer interface [polypeptide binding]; other site 498213007907 argininosuccinate synthase; Provisional; Region: PRK13820 498213007908 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 498213007909 ANP binding site [chemical binding]; other site 498213007910 Substrate Binding Site II [chemical binding]; other site 498213007911 Substrate Binding Site I [chemical binding]; other site 498213007912 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 498213007913 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 498213007914 putative active site [active] 498213007915 catalytic site [active] 498213007916 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 498213007917 putative active site [active] 498213007918 catalytic site [active] 498213007919 Predicted membrane protein [Function unknown]; Region: COG4129 498213007920 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 498213007921 Predicted integral membrane protein [Function unknown]; Region: COG5652 498213007922 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 498213007923 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 498213007924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498213007925 NAD(P) binding site [chemical binding]; other site 498213007926 active site 498213007927 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 498213007928 NeuB family; Region: NeuB; pfam03102 498213007929 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 498213007930 NeuB binding interface [polypeptide binding]; other site 498213007931 putative substrate binding site [chemical binding]; other site 498213007932 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 498213007933 ligand binding site; other site 498213007934 tetramer interface; other site 498213007935 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 498213007936 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 498213007937 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 498213007938 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 498213007939 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 498213007940 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 498213007941 UDP-galactopyranose mutase; Region: GLF; pfam03275 498213007942 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 498213007943 Bacterial sugar transferase; Region: Bac_transf; pfam02397 498213007944 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 498213007945 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 498213007946 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 498213007947 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 498213007948 Chain length determinant protein; Region: Wzz; cl15801 498213007949 Transcriptional regulator [Transcription]; Region: LytR; COG1316 498213007950 Putative motility protein; Region: YjfB_motility; pfam14070 498213007951 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213007952 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498213007953 dimer interface [polypeptide binding]; other site 498213007954 putative CheW interface [polypeptide binding]; other site 498213007955 flagellin; Provisional; Region: PRK12804 498213007956 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 498213007957 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 498213007958 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 498213007959 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 498213007960 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 498213007961 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 498213007962 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 498213007963 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 498213007964 NAD binding site [chemical binding]; other site 498213007965 substrate binding site [chemical binding]; other site 498213007966 homodimer interface [polypeptide binding]; other site 498213007967 active site 498213007968 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 498213007969 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 498213007970 NADP binding site [chemical binding]; other site 498213007971 active site 498213007972 putative substrate binding site [chemical binding]; other site 498213007973 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 498213007974 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 498213007975 substrate binding site; other site 498213007976 tetramer interface; other site 498213007977 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 498213007978 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 498213007979 inhibitor-cofactor binding pocket; inhibition site 498213007980 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213007981 catalytic residue [active] 498213007982 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 498213007983 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 498213007984 NAD binding site [chemical binding]; other site 498213007985 substrate binding site [chemical binding]; other site 498213007986 active site 498213007987 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 498213007988 S-adenosylmethionine binding site [chemical binding]; other site 498213007989 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 498213007990 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 498213007991 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 498213007992 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 498213007993 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 498213007994 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 498213007995 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 498213007996 NeuB family; Region: NeuB; pfam03102 498213007997 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 498213007998 NeuB binding interface [polypeptide binding]; other site 498213007999 putative substrate binding site [chemical binding]; other site 498213008000 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 498213008001 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 498213008002 active site 498213008003 homodimer interface [polypeptide binding]; other site 498213008004 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 498213008005 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 498213008006 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_4; cd08651 498213008007 putative active site [active] 498213008008 putative substrate binding site [chemical binding]; other site 498213008009 putative cosubstrate binding site; other site 498213008010 catalytic site [active] 498213008011 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 498213008012 active site 498213008013 hexamer interface [polypeptide binding]; other site 498213008014 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 498213008015 ligand binding site; other site 498213008016 tetramer interface; other site 498213008017 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 498213008018 FOG: CBS domain [General function prediction only]; Region: COG0517 498213008019 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 498213008020 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 498213008021 Substrate binding site; other site 498213008022 metal-binding site 498213008023 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 498213008024 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 498213008025 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 498213008026 active site 498213008027 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 498213008028 TPR motif; other site 498213008029 binding surface 498213008030 TPR repeat; Region: TPR_11; pfam13414 498213008031 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 498213008032 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 498213008033 Probable Catalytic site; other site 498213008034 metal-binding site 498213008035 Methyltransferase domain; Region: Methyltransf_23; pfam13489 498213008036 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 498213008037 S-adenosylmethionine binding site [chemical binding]; other site 498213008038 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 498213008039 binding surface 498213008040 Tetratricopeptide repeat; Region: TPR_16; pfam13432 498213008041 TPR motif; other site 498213008042 DNA gyrase subunit A; Validated; Region: PRK05560 498213008043 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 498213008044 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 498213008045 putative metal binding site; other site 498213008046 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 498213008047 binding surface 498213008048 TPR motif; other site 498213008049 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 498213008050 putative metal binding site; other site 498213008051 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 498213008052 binding surface 498213008053 TPR motif; other site 498213008054 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 498213008055 flagellin; Provisional; Region: PRK12804 498213008056 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 498213008057 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 498213008058 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 498213008059 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 498213008060 Flagellar protein FliS; Region: FliS; cl00654 498213008061 FlaG protein; Region: FlaG; pfam03646 498213008062 carbon storage regulator; Provisional; Region: PRK01712 498213008063 flagellar assembly protein FliW; Provisional; Region: PRK13285 498213008064 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 498213008065 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 498213008066 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 498213008067 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 498213008068 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 498213008069 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 498213008070 FlgN protein; Region: FlgN; pfam05130 498213008071 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 498213008072 flagellar motor switch protein; Validated; Region: PRK08119 498213008073 CheC-like family; Region: CheC; pfam04509 498213008074 CheC-like family; Region: CheC; pfam04509 498213008075 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 498213008076 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 498213008077 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 498213008078 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 498213008079 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 498213008080 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 498213008081 active site 498213008082 phosphorylation site [posttranslational modification] 498213008083 intermolecular recognition site; other site 498213008084 dimerization interface [polypeptide binding]; other site 498213008085 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 498213008086 CheC-like family; Region: CheC; pfam04509 498213008087 CheC-like family; Region: CheC; pfam04509 498213008088 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 498213008089 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 498213008090 putative binding surface; other site 498213008091 active site 498213008092 P2 response regulator binding domain; Region: P2; pfam07194 498213008093 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 498213008094 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 498213008095 ATP binding site [chemical binding]; other site 498213008096 Mg2+ binding site [ion binding]; other site 498213008097 G-X-G motif; other site 498213008098 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 498213008099 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 498213008100 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 498213008101 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 498213008102 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 498213008103 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 498213008104 active site 498213008105 phosphorylation site [posttranslational modification] 498213008106 intermolecular recognition site; other site 498213008107 dimerization interface [polypeptide binding]; other site 498213008108 CheB methylesterase; Region: CheB_methylest; pfam01339 498213008109 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13490 498213008110 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 498213008111 Protein of unknown function (DUF342); Region: DUF342; pfam03961 498213008112 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 498213008113 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 498213008114 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 498213008115 active site turn [active] 498213008116 phosphorylation site [posttranslational modification] 498213008117 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 498213008118 HPr interaction site; other site 498213008119 glycerol kinase (GK) interaction site [polypeptide binding]; other site 498213008120 active site 498213008121 phosphorylation site [posttranslational modification] 498213008122 transcriptional antiterminator BglG; Provisional; Region: PRK09772 498213008123 CAT RNA binding domain; Region: CAT_RBD; smart01061 498213008124 PRD domain; Region: PRD; pfam00874 498213008125 PRD domain; Region: PRD; pfam00874 498213008126 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 498213008127 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 498213008128 homodimer interface [polypeptide binding]; other site 498213008129 substrate-cofactor binding pocket; other site 498213008130 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213008131 catalytic residue [active] 498213008132 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 498213008133 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 498213008134 motif II; other site 498213008135 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 498213008136 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 498213008137 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 498213008138 dimer interface [polypeptide binding]; other site 498213008139 PYR/PP interface [polypeptide binding]; other site 498213008140 TPP binding site [chemical binding]; other site 498213008141 substrate binding site [chemical binding]; other site 498213008142 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 498213008143 Domain of unknown function; Region: EKR; smart00890 498213008144 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 498213008145 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 498213008146 TPP-binding site [chemical binding]; other site 498213008147 dimer interface [polypeptide binding]; other site 498213008148 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 498213008149 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 498213008150 active site 498213008151 homodimer interface [polypeptide binding]; other site 498213008152 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 498213008153 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213008154 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 498213008155 dimer interface [polypeptide binding]; other site 498213008156 phosphorylation site [posttranslational modification] 498213008157 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 498213008158 ATP binding site [chemical binding]; other site 498213008159 Mg2+ binding site [ion binding]; other site 498213008160 G-X-G motif; other site 498213008161 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 498213008162 DHH family; Region: DHH; pfam01368 498213008163 DHHA1 domain; Region: DHHA1; pfam02272 498213008164 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 498213008165 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 498213008166 AP (apurinic/apyrimidinic) site pocket; other site 498213008167 DNA interaction; other site 498213008168 Metal-binding active site; metal-binding site 498213008169 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 498213008170 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 498213008171 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 498213008172 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 498213008173 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 498213008174 Predicted membrane protein [Function unknown]; Region: COG2246 498213008175 GtrA-like protein; Region: GtrA; pfam04138 498213008176 DJ-1 family protein; Region: not_thiJ; TIGR01383 498213008177 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 498213008178 conserved cys residue [active] 498213008179 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 498213008180 DNA topoisomerase IV subunit A; Provisional; Region: PRK13979 498213008181 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 498213008182 CAP-like domain; other site 498213008183 active site 498213008184 primary dimer interface [polypeptide binding]; other site 498213008185 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 498213008186 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 498213008187 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 498213008188 ATP binding site [chemical binding]; other site 498213008189 Mg2+ binding site [ion binding]; other site 498213008190 G-X-G motif; other site 498213008191 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 498213008192 anchoring element; other site 498213008193 dimer interface [polypeptide binding]; other site 498213008194 ATP binding site [chemical binding]; other site 498213008195 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 498213008196 active site 498213008197 metal binding site [ion binding]; metal-binding site 498213008198 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 498213008199 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 498213008200 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 498213008201 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 498213008202 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 498213008203 NodB motif; other site 498213008204 active site 498213008205 catalytic site [active] 498213008206 Zn binding site [ion binding]; other site 498213008207 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 498213008208 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 498213008209 NAD binding site [chemical binding]; other site 498213008210 homodimer interface [polypeptide binding]; other site 498213008211 active site 498213008212 substrate binding site [chemical binding]; other site 498213008213 flavodoxin; Provisional; Region: PRK05568 498213008214 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 498213008215 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 498213008216 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 498213008217 Cupin domain; Region: Cupin_2; pfam07883 498213008218 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 498213008219 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213008220 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 498213008221 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 498213008222 putative dimer interface [polypeptide binding]; other site 498213008223 catalytic triad [active] 498213008224 glycerol kinase; Provisional; Region: glpK; PRK00047 498213008225 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 498213008226 N- and C-terminal domain interface [polypeptide binding]; other site 498213008227 active site 498213008228 MgATP binding site [chemical binding]; other site 498213008229 catalytic site [active] 498213008230 metal binding site [ion binding]; metal-binding site 498213008231 glycerol binding site [chemical binding]; other site 498213008232 homotetramer interface [polypeptide binding]; other site 498213008233 homodimer interface [polypeptide binding]; other site 498213008234 FBP binding site [chemical binding]; other site 498213008235 protein IIAGlc interface [polypeptide binding]; other site 498213008236 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 498213008237 amphipathic channel; other site 498213008238 Asn-Pro-Ala signature motifs; other site 498213008239 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 498213008240 VanZ like family; Region: VanZ; pfam04892 498213008241 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 498213008242 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 498213008243 Walker A/P-loop; other site 498213008244 ATP binding site [chemical binding]; other site 498213008245 Q-loop/lid; other site 498213008246 ABC transporter signature motif; other site 498213008247 Walker B; other site 498213008248 D-loop; other site 498213008249 H-loop/switch region; other site 498213008250 Predicted transcriptional regulators [Transcription]; Region: COG1725 498213008251 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498213008252 DNA-binding site [nucleotide binding]; DNA binding site 498213008253 VanZ like family; Region: VanZ; cl01971 498213008254 hybrid cluster protein; Provisional; Region: PRK05290 498213008255 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 498213008256 ACS interaction site; other site 498213008257 CODH interaction site; other site 498213008258 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 498213008259 hybrid metal cluster; other site 498213008260 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 498213008261 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 498213008262 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 498213008263 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 498213008264 Spore germination protein; Region: Spore_permease; pfam03845 498213008265 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 498213008266 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 498213008267 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 498213008268 phosphate binding site [ion binding]; other site 498213008269 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 498213008270 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 498213008271 NodB motif; other site 498213008272 active site 498213008273 catalytic site [active] 498213008274 Zn binding site [ion binding]; other site 498213008275 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 498213008276 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 498213008277 ATP binding site [chemical binding]; other site 498213008278 Mg++ binding site [ion binding]; other site 498213008279 motif III; other site 498213008280 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 498213008281 nucleotide binding region [chemical binding]; other site 498213008282 ATP-binding site [chemical binding]; other site 498213008283 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 498213008284 RNA binding site [nucleotide binding]; other site 498213008285 Probable zinc-binding domain; Region: zf-trcl; pfam13451 498213008286 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213008287 dimer interface [polypeptide binding]; other site 498213008288 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 498213008289 putative CheW interface [polypeptide binding]; other site 498213008290 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 498213008291 Ligand Binding Site [chemical binding]; other site 498213008292 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 498213008293 4Fe-4S binding domain; Region: Fer4_5; pfam12801 498213008294 4Fe-4S binding domain; Region: Fer4; cl02805 498213008295 glutaminase; Provisional; Region: PRK00971 498213008296 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 498213008297 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 498213008298 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 498213008299 Cache domain; Region: Cache_1; pfam02743 498213008300 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 498213008301 dimerization interface [polypeptide binding]; other site 498213008302 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498213008303 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213008304 dimer interface [polypeptide binding]; other site 498213008305 putative CheW interface [polypeptide binding]; other site 498213008306 TraX protein; Region: TraX; cl05434 498213008307 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 498213008308 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 498213008309 dimer interface [polypeptide binding]; other site 498213008310 putative radical transfer pathway; other site 498213008311 diiron center [ion binding]; other site 498213008312 tyrosyl radical; other site 498213008313 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07088 498213008314 ATP cone domain; Region: ATP-cone; pfam03477 498213008315 Class I ribonucleotide reductase; Region: RNR_I; cd01679 498213008316 active site 498213008317 dimer interface [polypeptide binding]; other site 498213008318 catalytic residues [active] 498213008319 effector binding site; other site 498213008320 R2 peptide binding site; other site 498213008321 Putative amidase domain; Region: Amidase_6; pfam12671 498213008322 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 498213008323 DNA polymerase IV; Provisional; Region: PRK14133 498213008324 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 498213008325 active site 498213008326 DNA binding site [nucleotide binding] 498213008327 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 498213008328 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 498213008329 homodimer interface [polypeptide binding]; other site 498213008330 active site 498213008331 FMN binding site [chemical binding]; other site 498213008332 substrate binding site [chemical binding]; other site 498213008333 4Fe-4S binding domain; Region: Fer4; pfam00037 498213008334 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 498213008335 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 498213008336 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 498213008337 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 498213008338 active site 498213008339 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 498213008340 Uncharacterized conserved protein [Function unknown]; Region: COG1434 498213008341 putative active site [active] 498213008342 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 498213008343 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 498213008344 putative DNA binding site [nucleotide binding]; other site 498213008345 putative Zn2+ binding site [ion binding]; other site 498213008346 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213008347 Walker A/P-loop; other site 498213008348 ATP binding site [chemical binding]; other site 498213008349 Q-loop/lid; other site 498213008350 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 498213008351 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213008352 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 498213008353 Walker A/P-loop; other site 498213008354 ATP binding site [chemical binding]; other site 498213008355 Q-loop/lid; other site 498213008356 ABC transporter signature motif; other site 498213008357 Walker B; other site 498213008358 D-loop; other site 498213008359 H-loop/switch region; other site 498213008360 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 498213008361 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 498213008362 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 498213008363 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 498213008364 Carbohydrate binding domain; Region: CBM_25; smart01066 498213008365 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 498213008366 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 498213008367 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 498213008368 dimerization interface [polypeptide binding]; other site 498213008369 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213008370 dimer interface [polypeptide binding]; other site 498213008371 putative CheW interface [polypeptide binding]; other site 498213008372 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_17; cd04676 498213008373 nudix motif; other site 498213008374 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 498213008375 metal binding site 2 [ion binding]; metal-binding site 498213008376 putative DNA binding helix; other site 498213008377 metal binding site 1 [ion binding]; metal-binding site 498213008378 dimer interface [polypeptide binding]; other site 498213008379 structural Zn2+ binding site [ion binding]; other site 498213008380 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 498213008381 Glyco_18 domain; Region: Glyco_18; smart00636 498213008382 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 498213008383 active site 498213008384 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 498213008385 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 498213008386 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 498213008387 active site 498213008388 trimer interface [polypeptide binding]; other site 498213008389 allosteric site; other site 498213008390 active site lid [active] 498213008391 hexamer (dimer of trimers) interface [polypeptide binding]; other site 498213008392 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 498213008393 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 498213008394 active site 498213008395 dimer interface [polypeptide binding]; other site 498213008396 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 498213008397 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498213008398 DNA-binding site [nucleotide binding]; DNA binding site 498213008399 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 498213008400 PQQ-like domain; Region: PQQ_2; pfam13360 498213008401 PQQ-like domain; Region: PQQ_2; pfam13360 498213008402 CAT RNA binding domain; Region: CAT_RBD; smart01061 498213008403 transcriptional antiterminator BglG; Provisional; Region: PRK09772 498213008404 PRD domain; Region: PRD; pfam00874 498213008405 PRD domain; Region: PRD; pfam00874 498213008406 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 498213008407 HPr interaction site; other site 498213008408 glycerol kinase (GK) interaction site [polypeptide binding]; other site 498213008409 active site 498213008410 phosphorylation site [posttranslational modification] 498213008411 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 498213008412 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 498213008413 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 498213008414 active site turn [active] 498213008415 phosphorylation site [posttranslational modification] 498213008416 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 498213008417 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 498213008418 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 498213008419 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 498213008420 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 498213008421 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213008422 Walker A/P-loop; other site 498213008423 ATP binding site [chemical binding]; other site 498213008424 Q-loop/lid; other site 498213008425 ABC transporter signature motif; other site 498213008426 Walker B; other site 498213008427 D-loop; other site 498213008428 H-loop/switch region; other site 498213008429 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 498213008430 metal binding site 2 [ion binding]; metal-binding site 498213008431 putative DNA binding helix; other site 498213008432 metal binding site 1 [ion binding]; metal-binding site 498213008433 dimer interface [polypeptide binding]; other site 498213008434 structural Zn2+ binding site [ion binding]; other site 498213008435 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 498213008436 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 498213008437 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 498213008438 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 498213008439 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 498213008440 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 498213008441 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 498213008442 FAD binding site [chemical binding]; other site 498213008443 homotetramer interface [polypeptide binding]; other site 498213008444 substrate binding pocket [chemical binding]; other site 498213008445 catalytic base [active] 498213008446 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 498213008447 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 498213008448 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 498213008449 Rubredoxin; Region: Rubredoxin; pfam00301 498213008450 iron binding site [ion binding]; other site 498213008451 HTH-like domain; Region: HTH_21; pfam13276 498213008452 Integrase core domain; Region: rve; pfam00665 498213008453 Integrase core domain; Region: rve_2; pfam13333 498213008454 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 498213008455 Coenzyme A transferase; Region: CoA_trans; cl17247 498213008456 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 498213008457 Ligand binding site; other site 498213008458 metal-binding site 498213008459 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 498213008460 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 498213008461 catalytic loop [active] 498213008462 iron binding site [ion binding]; other site 498213008463 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 498213008464 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 498213008465 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 498213008466 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 498213008467 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 498213008468 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 498213008469 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 498213008470 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 498213008471 active site turn [active] 498213008472 phosphorylation site [posttranslational modification] 498213008473 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 498213008474 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 498213008475 HPr interaction site; other site 498213008476 glycerol kinase (GK) interaction site [polypeptide binding]; other site 498213008477 active site 498213008478 phosphorylation site [posttranslational modification] 498213008479 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 498213008480 beta-galactosidase; Region: BGL; TIGR03356 498213008481 transcriptional antiterminator BglG; Provisional; Region: PRK09772 498213008482 CAT RNA binding domain; Region: CAT_RBD; smart01061 498213008483 PRD domain; Region: PRD; pfam00874 498213008484 PRD domain; Region: PRD; pfam00874 498213008485 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 498213008486 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 498213008487 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 498213008488 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 498213008489 motif II; other site 498213008490 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 498213008491 amidase catalytic site [active] 498213008492 Zn binding residues [ion binding]; other site 498213008493 substrate binding site [chemical binding]; other site 498213008494 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 498213008495 chloramphenicol/florfenicol resistance protein; Provisional; Region: PRK14453 498213008496 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 498213008497 FeS/SAM binding site; other site 498213008498 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 498213008499 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 498213008500 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 498213008501 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 498213008502 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 498213008503 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 498213008504 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 498213008505 heme binding pocket [chemical binding]; other site 498213008506 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 498213008507 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213008508 Coenzyme A binding pocket [chemical binding]; other site 498213008509 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 498213008510 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 498213008511 putative deacylase active site [active] 498213008512 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_1; cd13140 498213008513 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 498213008514 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 498213008515 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213008516 Superinfection exclusion protein B; Region: SieB; pfam14163 498213008517 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 498213008518 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 498213008519 FRG domain; Region: FRG; pfam08867 498213008520 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 498213008521 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 498213008522 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 498213008523 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 498213008524 Protein of unknown function, DUF606; Region: DUF606; pfam04657 498213008525 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498213008526 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 498213008527 TRAM domain; Region: TRAM; pfam01938 498213008528 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 498213008529 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 498213008530 S-adenosylmethionine binding site [chemical binding]; other site 498213008531 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 498213008532 Sulfatase; Region: Sulfatase; pfam00884 498213008533 hypothetical protein; Provisional; Region: PRK10621 498213008534 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 498213008535 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 498213008536 homopentamer interface [polypeptide binding]; other site 498213008537 active site 498213008538 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 498213008539 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 498213008540 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 498213008541 dimerization interface [polypeptide binding]; other site 498213008542 active site 498213008543 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 498213008544 Lumazine binding domain; Region: Lum_binding; pfam00677 498213008545 Lumazine binding domain; Region: Lum_binding; pfam00677 498213008546 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 498213008547 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 498213008548 catalytic motif [active] 498213008549 Zn binding site [ion binding]; other site 498213008550 RibD C-terminal domain; Region: RibD_C; cl17279 498213008551 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 498213008552 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 498213008553 metal binding site [ion binding]; metal-binding site 498213008554 dimer interface [polypeptide binding]; other site 498213008555 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 498213008556 magnesium-transporting ATPase; Provisional; Region: PRK15122 498213008557 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 498213008558 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 498213008559 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 498213008560 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 498213008561 motif II; other site 498213008562 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 498213008563 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 498213008564 active site 498213008565 Spore germination protein; Region: Spore_permease; cl17796 498213008566 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 498213008567 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 498213008568 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 498213008569 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 498213008570 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 498213008571 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 498213008572 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 498213008573 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 498213008574 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 498213008575 purine monophosphate binding site [chemical binding]; other site 498213008576 dimer interface [polypeptide binding]; other site 498213008577 putative catalytic residues [active] 498213008578 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 498213008579 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 498213008580 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 498213008581 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 498213008582 active site 498213008583 substrate binding site [chemical binding]; other site 498213008584 cosubstrate binding site; other site 498213008585 catalytic site [active] 498213008586 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 498213008587 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 498213008588 dimerization interface [polypeptide binding]; other site 498213008589 putative ATP binding site [chemical binding]; other site 498213008590 amidophosphoribosyltransferase; Provisional; Region: PRK05793 498213008591 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 498213008592 active site 498213008593 tetramer interface [polypeptide binding]; other site 498213008594 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 498213008595 active site 498213008596 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 498213008597 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 498213008598 ATP binding site [chemical binding]; other site 498213008599 active site 498213008600 substrate binding site [chemical binding]; other site 498213008601 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 498213008602 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 498213008603 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 498213008604 catalytic loop [active] 498213008605 iron binding site [ion binding]; other site 498213008606 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 498213008607 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 498213008608 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 498213008609 putative selenium metabolism hydrolase; Region: selenium_YgeY; TIGR03526 498213008610 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 498213008611 putative metal binding site [ion binding]; other site 498213008612 putative dimer interface [polypeptide binding]; other site 498213008613 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 498213008614 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 498213008615 active site 498213008616 putative substrate binding pocket [chemical binding]; other site 498213008617 putative selenate reductase, YgfK subunit; Region: Se_ygfK; TIGR03315 498213008618 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 498213008619 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 498213008620 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 498213008621 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 498213008622 phenylhydantoinase; Validated; Region: PRK08323 498213008623 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 498213008624 tetramer interface [polypeptide binding]; other site 498213008625 active site 498213008626 xanthine permease; Region: pbuX; TIGR03173 498213008627 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 498213008628 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 498213008629 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 498213008630 catalytic residue [active] 498213008631 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 498213008632 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 498213008633 Walker A motif; other site 498213008634 ATP binding site [chemical binding]; other site 498213008635 Walker B motif; other site 498213008636 arginine finger; other site 498213008637 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 498213008638 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 498213008639 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 498213008640 Ligand binding site; other site 498213008641 metal-binding site 498213008642 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 498213008643 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 498213008644 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 498213008645 XdhC Rossmann domain; Region: XdhC_C; pfam13478 498213008646 NTPase; Region: NTPase_1; pfam03266 498213008647 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 498213008648 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 498213008649 ABC-ATPase subunit interface; other site 498213008650 dimer interface [polypeptide binding]; other site 498213008651 putative PBP binding regions; other site 498213008652 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 498213008653 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 498213008654 Walker A/P-loop; other site 498213008655 ATP binding site [chemical binding]; other site 498213008656 Q-loop/lid; other site 498213008657 ABC transporter signature motif; other site 498213008658 Walker B; other site 498213008659 D-loop; other site 498213008660 H-loop/switch region; other site 498213008661 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 498213008662 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 498213008663 intersubunit interface [polypeptide binding]; other site 498213008664 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 498213008665 active site 498213008666 catalytic triad [active] 498213008667 oxyanion hole [active] 498213008668 Uncharacterized conserved protein [Function unknown]; Region: COG1434 498213008669 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 498213008670 putative active site [active] 498213008671 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 498213008672 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 498213008673 amino acid carrier protein; Region: agcS; TIGR00835 498213008674 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 498213008675 Part of AAA domain; Region: AAA_19; pfam13245 498213008676 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 498213008677 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 498213008678 tetramer interface [polypeptide binding]; other site 498213008679 catalytic Zn binding site [ion binding]; other site 498213008680 NADP binding site [chemical binding]; other site 498213008681 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 498213008682 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 498213008683 putative active site [active] 498213008684 heme pocket [chemical binding]; other site 498213008685 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 498213008686 Walker A motif; other site 498213008687 ATP binding site [chemical binding]; other site 498213008688 Walker B motif; other site 498213008689 arginine finger; other site 498213008690 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 498213008691 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 498213008692 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 498213008693 Ligand Binding Site [chemical binding]; other site 498213008694 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 498213008695 putative metal binding site [ion binding]; other site 498213008696 putative dimer interface [polypeptide binding]; other site 498213008697 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 498213008698 GAF domain; Region: GAF_2; pfam13185 498213008699 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 498213008700 Domain of unknown function DUF21; Region: DUF21; pfam01595 498213008701 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 498213008702 Transporter associated domain; Region: CorC_HlyC; pfam03471 498213008703 Domain of unknown function DUF77; Region: DUF77; pfam01910 498213008704 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 498213008705 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 498213008706 amidophosphoribosyltransferase; Provisional; Region: PRK05793 498213008707 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 498213008708 active site 498213008709 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 498213008710 active site 498213008711 Protein of unknown function (DUF503); Region: DUF503; pfam04456 498213008712 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 498213008713 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 498213008714 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 498213008715 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 498213008716 Walker A/P-loop; other site 498213008717 ATP binding site [chemical binding]; other site 498213008718 Q-loop/lid; other site 498213008719 ABC transporter signature motif; other site 498213008720 Walker B; other site 498213008721 D-loop; other site 498213008722 H-loop/switch region; other site 498213008723 Predicted transcriptional regulators [Transcription]; Region: COG1725 498213008724 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498213008725 DNA-binding site [nucleotide binding]; DNA binding site 498213008726 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 498213008727 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 498213008728 Ferredoxin [Energy production and conversion]; Region: COG1146 498213008729 4Fe-4S binding domain; Region: Fer4_6; pfam12837 498213008730 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 498213008731 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 498213008732 ligand binding site [chemical binding]; other site 498213008733 flexible hinge region; other site 498213008734 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 498213008735 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 498213008736 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 498213008737 Predicted membrane protein [Function unknown]; Region: COG1511 498213008738 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 498213008739 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 498213008740 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 498213008741 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 498213008742 active site 498213008743 catalytic site [active] 498213008744 metal binding site [ion binding]; metal-binding site 498213008745 dimer interface [polypeptide binding]; other site 498213008746 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 498213008747 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 498213008748 catalytic residue [active] 498213008749 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 498213008750 Domain of unknown function DUF21; Region: DUF21; pfam01595 498213008751 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 498213008752 Transporter associated domain; Region: CorC_HlyC; pfam03471 498213008753 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 498213008754 Putative zinc ribbon domain; Region: DUF164; pfam02591 498213008755 Uncharacterized conserved protein [Function unknown]; Region: COG0327 498213008756 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 498213008757 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 498213008758 Family of unknown function (DUF633); Region: DUF633; pfam04816 498213008759 Protein of unknown function (DUF2679); Region: DUF2679; pfam10882 498213008760 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 498213008761 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 498213008762 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 498213008763 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498213008764 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 498213008765 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 498213008766 DNA binding residues [nucleotide binding] 498213008767 DNA primase, catalytic core; Region: dnaG; TIGR01391 498213008768 CHC2 zinc finger; Region: zf-CHC2; pfam01807 498213008769 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 498213008770 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 498213008771 active site 498213008772 metal binding site [ion binding]; metal-binding site 498213008773 interdomain interaction site; other site 498213008774 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 498213008775 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 498213008776 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498213008777 Zn2+ binding site [ion binding]; other site 498213008778 Mg2+ binding site [ion binding]; other site 498213008779 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 498213008780 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 498213008781 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 498213008782 pyruvate phosphate dikinase; Provisional; Region: PRK09279 498213008783 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 498213008784 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 498213008785 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 498213008786 HTH domain; Region: HTH_11; pfam08279 498213008787 FOG: CBS domain [General function prediction only]; Region: COG0517 498213008788 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_4; cd04617 498213008789 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 498213008790 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 498213008791 GTPase Era; Reviewed; Region: era; PRK00089 498213008792 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 498213008793 G1 box; other site 498213008794 GTP/Mg2+ binding site [chemical binding]; other site 498213008795 Switch I region; other site 498213008796 G2 box; other site 498213008797 Switch II region; other site 498213008798 G3 box; other site 498213008799 G4 box; other site 498213008800 G5 box; other site 498213008801 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 498213008802 active site 498213008803 catalytic motif [active] 498213008804 Zn binding site [ion binding]; other site 498213008805 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 498213008806 PAP2_like proteins, diacylglycerol_kinase like sub-family. In some prokaryotes, PAP2_like phosphatase domains appear fused to E. coli DAGK-like trans-membrane diacylglycerol kinase domains. The cellular function of these architectures remains to be...; Region: PAP2_diacylglycerolkinase; cd03383 498213008807 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 498213008808 active site 498213008809 metal-binding heat shock protein; Provisional; Region: PRK00016 498213008810 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 498213008811 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 498213008812 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498213008813 Zn2+ binding site [ion binding]; other site 498213008814 Mg2+ binding site [ion binding]; other site 498213008815 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 498213008816 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 498213008817 sporulation protein YqfC; Region: spore_yqfC; TIGR02856 498213008818 Yqey-like protein; Region: YqeY; pfam09424 498213008819 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 498213008820 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 498213008821 nucleotide binding site/active site [active] 498213008822 HIT family signature motif; other site 498213008823 catalytic residue [active] 498213008824 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 498213008825 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 498213008826 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 498213008827 FeS/SAM binding site; other site 498213008828 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 498213008829 RNA methyltransferase, RsmE family; Region: TIGR00046 498213008830 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 498213008831 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 498213008832 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 498213008833 S-adenosylmethionine binding site [chemical binding]; other site 498213008834 chaperone protein DnaJ; Provisional; Region: PRK14297 498213008835 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 498213008836 HSP70 interaction site [polypeptide binding]; other site 498213008837 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 498213008838 substrate binding site [polypeptide binding]; other site 498213008839 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 498213008840 Zn binding sites [ion binding]; other site 498213008841 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 498213008842 dimer interface [polypeptide binding]; other site 498213008843 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 498213008844 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 498213008845 nucleotide binding site [chemical binding]; other site 498213008846 NEF interaction site [polypeptide binding]; other site 498213008847 SBD interface [polypeptide binding]; other site 498213008848 GrpE; Region: GrpE; pfam01025 498213008849 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 498213008850 dimer interface [polypeptide binding]; other site 498213008851 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 498213008852 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 498213008853 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 498213008854 DNA-binding site [nucleotide binding]; DNA binding site 498213008855 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 498213008856 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 498213008857 FeS/SAM binding site; other site 498213008858 HemN C-terminal domain; Region: HemN_C; pfam06969 498213008859 GTP-binding protein LepA; Provisional; Region: PRK05433 498213008860 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 498213008861 G1 box; other site 498213008862 putative GEF interaction site [polypeptide binding]; other site 498213008863 GTP/Mg2+ binding site [chemical binding]; other site 498213008864 Switch I region; other site 498213008865 G2 box; other site 498213008866 G3 box; other site 498213008867 Switch II region; other site 498213008868 G4 box; other site 498213008869 G5 box; other site 498213008870 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 498213008871 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 498213008872 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 498213008873 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 498213008874 stage II sporulation protein P; Region: spore_II_P; TIGR02867 498213008875 germination protease; Provisional; Region: PRK12362 498213008876 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 498213008877 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 498213008878 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 498213008879 Competence protein; Region: Competence; pfam03772 498213008880 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 498213008881 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 498213008882 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 498213008883 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 498213008884 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 498213008885 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 498213008886 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 498213008887 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 498213008888 G1 box; other site 498213008889 putative GEF interaction site [polypeptide binding]; other site 498213008890 GTP/Mg2+ binding site [chemical binding]; other site 498213008891 Switch I region; other site 498213008892 G2 box; other site 498213008893 G3 box; other site 498213008894 Switch II region; other site 498213008895 G4 box; other site 498213008896 G5 box; other site 498213008897 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 498213008898 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 498213008899 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 498213008900 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 498213008901 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 498213008902 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 498213008903 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 498213008904 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 498213008905 catalytic residue [active] 498213008906 selenophosphate synthetase; Provisional; Region: PRK00943 498213008907 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 498213008908 dimerization interface [polypeptide binding]; other site 498213008909 putative ATP binding site [chemical binding]; other site 498213008910 SLBB domain; Region: SLBB; pfam10531 498213008911 Helix-hairpin-helix motif; Region: HHH; pfam00633 498213008912 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 498213008913 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 498213008914 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 498213008915 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 498213008916 RNA binding surface [nucleotide binding]; other site 498213008917 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 498213008918 active site 498213008919 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 498213008920 homotrimer interaction site [polypeptide binding]; other site 498213008921 putative active site [active] 498213008922 Transcriptional regulator [Transcription]; Region: LytR; COG1316 498213008923 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 498213008924 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498213008925 Zn2+ binding site [ion binding]; other site 498213008926 Mg2+ binding site [ion binding]; other site 498213008927 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 498213008928 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 498213008929 active site 498213008930 (T/H)XGH motif; other site 498213008931 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 498213008932 GTPase CgtA; Reviewed; Region: obgE; PRK12297 498213008933 GTP1/OBG; Region: GTP1_OBG; pfam01018 498213008934 Obg GTPase; Region: Obg; cd01898 498213008935 G1 box; other site 498213008936 GTP/Mg2+ binding site [chemical binding]; other site 498213008937 Switch I region; other site 498213008938 G2 box; other site 498213008939 G3 box; other site 498213008940 Switch II region; other site 498213008941 G4 box; other site 498213008942 G5 box; other site 498213008943 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 498213008944 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 498213008945 hypothetical protein; Provisional; Region: PRK14553 498213008946 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 498213008947 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 498213008948 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 498213008949 homodimer interface [polypeptide binding]; other site 498213008950 oligonucleotide binding site [chemical binding]; other site 498213008951 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 498213008952 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 498213008953 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 498213008954 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 498213008955 FeS/SAM binding site; other site 498213008956 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 498213008957 active site 498213008958 Peptidase family M50; Region: Peptidase_M50; pfam02163 498213008959 putative substrate binding region [chemical binding]; other site 498213008960 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 498213008961 Peptidase family M23; Region: Peptidase_M23; pfam01551 498213008962 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 498213008963 cell division topological specificity factor MinE; Provisional; Region: PRK13987 498213008964 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 498213008965 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 498213008966 Switch I; other site 498213008967 Switch II; other site 498213008968 septum formation inhibitor; Reviewed; Region: minC; PRK00513 498213008969 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 498213008970 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 498213008971 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 498213008972 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 498213008973 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 498213008974 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 498213008975 rod shape-determining protein MreC; Provisional; Region: PRK13922 498213008976 rod shape-determining protein MreC; Region: MreC; pfam04085 498213008977 rod shape-determining protein MreB; Provisional; Region: PRK13927 498213008978 MreB and similar proteins; Region: MreB_like; cd10225 498213008979 nucleotide binding site [chemical binding]; other site 498213008980 Mg binding site [ion binding]; other site 498213008981 putative protofilament interaction site [polypeptide binding]; other site 498213008982 RodZ interaction site [polypeptide binding]; other site 498213008983 hypothetical protein; Reviewed; Region: PRK00024 498213008984 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 498213008985 helix-hairpin-helix signature motif; other site 498213008986 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 498213008987 MPN+ (JAMM) motif; other site 498213008988 Zinc-binding site [ion binding]; other site 498213008989 Maf-like protein; Reviewed; Region: PRK00078 498213008990 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 498213008991 active site 498213008992 dimer interface [polypeptide binding]; other site 498213008993 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 498213008994 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 498213008995 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 498213008996 hypothetical protein; Provisional; Region: PRK04435 498213008997 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 498213008998 DNA-binding interface [nucleotide binding]; DNA binding site 498213008999 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 498213009000 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 498213009001 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 498213009002 N-acetyl-D-glucosamine binding site [chemical binding]; other site 498213009003 catalytic residue [active] 498213009004 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 498213009005 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 498213009006 CoA-binding site [chemical binding]; other site 498213009007 ATP-binding [chemical binding]; other site 498213009008 DNA polymerase I; Provisional; Region: PRK05755 498213009009 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 498213009010 active site 498213009011 metal binding site 1 [ion binding]; metal-binding site 498213009012 putative 5' ssDNA interaction site; other site 498213009013 metal binding site 3; metal-binding site 498213009014 metal binding site 2 [ion binding]; metal-binding site 498213009015 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 498213009016 putative DNA binding site [nucleotide binding]; other site 498213009017 putative metal binding site [ion binding]; other site 498213009018 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 498213009019 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 498213009020 active site 498213009021 DNA binding site [nucleotide binding] 498213009022 catalytic site [active] 498213009023 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 498213009024 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 498213009025 Tetramer interface [polypeptide binding]; other site 498213009026 active site 498213009027 FMN-binding site [chemical binding]; other site 498213009028 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 498213009029 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 498213009030 active site 498213009031 metal binding site [ion binding]; metal-binding site 498213009032 Bacterial SH3 domain; Region: SH3_3; pfam08239 498213009033 Haemolysin XhlA; Region: XhlA; pfam10779 498213009034 SPRY domain; Region: SPRY; cl02614 498213009035 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 498213009036 Caspase domain; Region: Peptidase_C14; pfam00656 498213009037 hypothetical protein; Validated; Region: PRK08116 498213009038 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 498213009039 Walker A motif; other site 498213009040 ATP binding site [chemical binding]; other site 498213009041 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 498213009042 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 498213009043 non-specific DNA binding site [nucleotide binding]; other site 498213009044 salt bridge; other site 498213009045 sequence-specific DNA binding site [nucleotide binding]; other site 498213009046 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 498213009047 non-specific DNA binding site [nucleotide binding]; other site 498213009048 salt bridge; other site 498213009049 sequence-specific DNA binding site [nucleotide binding]; other site 498213009050 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 498213009051 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 498213009052 non-specific DNA binding site [nucleotide binding]; other site 498213009053 salt bridge; other site 498213009054 sequence-specific DNA binding site [nucleotide binding]; other site 498213009055 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 498213009056 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 498213009057 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 498213009058 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 498213009059 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 498213009060 dimer interface [polypeptide binding]; other site 498213009061 anticodon binding site; other site 498213009062 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 498213009063 homodimer interface [polypeptide binding]; other site 498213009064 motif 1; other site 498213009065 active site 498213009066 motif 2; other site 498213009067 GAD domain; Region: GAD; pfam02938 498213009068 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 498213009069 motif 3; other site 498213009070 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 498213009071 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 498213009072 dimer interface [polypeptide binding]; other site 498213009073 motif 1; other site 498213009074 active site 498213009075 motif 2; other site 498213009076 motif 3; other site 498213009077 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 498213009078 anticodon binding site; other site 498213009079 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 498213009080 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 498213009081 FeS/SAM binding site; other site 498213009082 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 498213009083 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 498213009084 putative active site [active] 498213009085 dimerization interface [polypeptide binding]; other site 498213009086 putative tRNAtyr binding site [nucleotide binding]; other site 498213009087 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 498213009088 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498213009089 Zn2+ binding site [ion binding]; other site 498213009090 Mg2+ binding site [ion binding]; other site 498213009091 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 498213009092 synthetase active site [active] 498213009093 NTP binding site [chemical binding]; other site 498213009094 metal binding site [ion binding]; metal-binding site 498213009095 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 498213009096 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 498213009097 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 498213009098 active site 498213009099 DHH family; Region: DHH; pfam01368 498213009100 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 498213009101 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 498213009102 Protein export membrane protein; Region: SecD_SecF; pfam02355 498213009103 protein-export membrane protein SecD; Region: secD; TIGR01129 498213009104 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 498213009105 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 498213009106 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 498213009107 FeS/SAM binding site; other site 498213009108 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 498213009109 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 498213009110 Protein of unknown function (DUF3792); Region: DUF3792; pfam12670 498213009111 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 498213009112 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 498213009113 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 498213009114 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 498213009115 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 498213009116 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 498213009117 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 498213009118 Walker A motif; other site 498213009119 ATP binding site [chemical binding]; other site 498213009120 Walker B motif; other site 498213009121 arginine finger; other site 498213009122 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 498213009123 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 498213009124 RuvA N terminal domain; Region: RuvA_N; pfam01330 498213009125 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 498213009126 hypothetical protein; Validated; Region: PRK00110 498213009127 Uncharacterized conserved protein [Function unknown]; Region: COG1739 498213009128 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 498213009129 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 498213009130 HEAT repeats; Region: HEAT_2; pfam13646 498213009131 HEAT-like repeat; Region: HEAT_EZ; pfam13513 498213009132 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 498213009133 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498213009134 DNA-binding site [nucleotide binding]; DNA binding site 498213009135 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 498213009136 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213009137 homodimer interface [polypeptide binding]; other site 498213009138 catalytic residue [active] 498213009139 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 498213009140 active site 498213009141 NTP binding site [chemical binding]; other site 498213009142 metal binding triad [ion binding]; metal-binding site 498213009143 antibiotic binding site [chemical binding]; other site 498213009144 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 498213009145 Rubredoxin; Region: Rubredoxin; pfam00301 498213009146 iron binding site [ion binding]; other site 498213009147 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 498213009148 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 498213009149 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 498213009150 HflX GTPase family; Region: HflX; cd01878 498213009151 G1 box; other site 498213009152 GTP/Mg2+ binding site [chemical binding]; other site 498213009153 Switch I region; other site 498213009154 G2 box; other site 498213009155 G3 box; other site 498213009156 Switch II region; other site 498213009157 G4 box; other site 498213009158 G5 box; other site 498213009159 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 498213009160 active site 498213009161 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 498213009162 Transglycosylase; Region: Transgly; pfam00912 498213009163 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 498213009164 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 498213009165 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 498213009166 stage V sporulation protein AD; Validated; Region: PRK08304 498213009167 stage V sporulation protein AD; Provisional; Region: PRK12404 498213009168 SpoVA protein; Region: SpoVA; cl04298 498213009169 sporulation sigma factor SigF; Validated; Region: PRK05572 498213009170 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498213009171 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 498213009172 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 498213009173 DNA binding residues [nucleotide binding] 498213009174 anti-sigma F factor; Provisional; Region: PRK03660 498213009175 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 498213009176 ATP binding site [chemical binding]; other site 498213009177 Mg2+ binding site [ion binding]; other site 498213009178 G-X-G motif; other site 498213009179 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 498213009180 anti sigma factor interaction site; other site 498213009181 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 498213009182 regulatory phosphorylation site [posttranslational modification]; other site 498213009183 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 498213009184 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 498213009185 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 498213009186 NodB motif; other site 498213009187 active site 498213009188 catalytic site [active] 498213009189 Cd binding site [ion binding]; other site 498213009190 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 498213009191 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 498213009192 Bacterial sugar transferase; Region: Bac_transf; pfam02397 498213009193 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 498213009194 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 498213009195 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 498213009196 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 498213009197 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 498213009198 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 498213009199 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 498213009200 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 498213009201 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 498213009202 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 498213009203 O-Antigen ligase; Region: Wzy_C; pfam04932 498213009204 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 498213009205 putative glycosyl transferase; Provisional; Region: PRK10307 498213009206 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 498213009207 active site 498213009208 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 498213009209 homodimer interface [polypeptide binding]; other site 498213009210 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 498213009211 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 498213009212 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 498213009213 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 498213009214 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 498213009215 Leucine-rich repeats; other site 498213009216 Substrate binding site [chemical binding]; other site 498213009217 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 498213009218 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 498213009219 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 498213009220 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 498213009221 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 498213009222 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 498213009223 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 498213009224 putative trimer interface [polypeptide binding]; other site 498213009225 putative CoA binding site [chemical binding]; other site 498213009226 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 498213009227 putative trimer interface [polypeptide binding]; other site 498213009228 putative active site [active] 498213009229 putative substrate binding site [chemical binding]; other site 498213009230 putative CoA binding site [chemical binding]; other site 498213009231 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 498213009232 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 498213009233 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 498213009234 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 498213009235 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 498213009236 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 498213009237 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 498213009238 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 498213009239 NAD(P) binding site [chemical binding]; other site 498213009240 homodimer interface [polypeptide binding]; other site 498213009241 substrate binding site [chemical binding]; other site 498213009242 active site 498213009243 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 498213009244 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 498213009245 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 498213009246 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 498213009247 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 498213009248 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 498213009249 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 498213009250 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 498213009251 active site 498213009252 metal binding site [ion binding]; metal-binding site 498213009253 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 498213009254 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 498213009255 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 498213009256 active site 498213009257 metal binding site [ion binding]; metal-binding site 498213009258 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 498213009259 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 498213009260 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 498213009261 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 498213009262 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 498213009263 active site 498213009264 tetramer interface; other site 498213009265 Tetratricopeptide repeat; Region: TPR_12; pfam13424 498213009266 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 498213009267 binding surface 498213009268 TPR motif; other site 498213009269 Tetratricopeptide repeat; Region: TPR_12; pfam13424 498213009270 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 498213009271 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 498213009272 active site 498213009273 substrate binding site [chemical binding]; other site 498213009274 metal binding site [ion binding]; metal-binding site 498213009275 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 498213009276 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 498213009277 5S rRNA interface [nucleotide binding]; other site 498213009278 CTC domain interface [polypeptide binding]; other site 498213009279 L16 interface [polypeptide binding]; other site 498213009280 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 498213009281 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 498213009282 homodimer interface [polypeptide binding]; other site 498213009283 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213009284 catalytic residue [active] 498213009285 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 498213009286 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 498213009287 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 498213009288 active site 498213009289 substrate binding site [chemical binding]; other site 498213009290 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 498213009291 FMN binding site [chemical binding]; other site 498213009292 putative catalytic residues [active] 498213009293 Uncharacterized conserved protein [Function unknown]; Region: COG1683 498213009294 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 498213009295 MutS domain III; Region: MutS_III; pfam05192 498213009296 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 498213009297 Walker A/P-loop; other site 498213009298 ATP binding site [chemical binding]; other site 498213009299 Q-loop/lid; other site 498213009300 ABC transporter signature motif; other site 498213009301 Walker B; other site 498213009302 D-loop; other site 498213009303 H-loop/switch region; other site 498213009304 Smr domain; Region: Smr; pfam01713 498213009305 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 498213009306 Peptidase family U32; Region: Peptidase_U32; pfam01136 498213009307 Collagenase; Region: DUF3656; pfam12392 498213009308 Peptidase family U32; Region: Peptidase_U32; cl03113 498213009309 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 498213009310 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 498213009311 active site 498213009312 Cell division protein ZapA; Region: ZapA; pfam05164 498213009313 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 498213009314 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 498213009315 putative tRNA-binding site [nucleotide binding]; other site 498213009316 B3/4 domain; Region: B3_4; pfam03483 498213009317 tRNA synthetase B5 domain; Region: B5; smart00874 498213009318 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 498213009319 dimer interface [polypeptide binding]; other site 498213009320 motif 1; other site 498213009321 motif 3; other site 498213009322 motif 2; other site 498213009323 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 498213009324 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 498213009325 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 498213009326 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 498213009327 dimer interface [polypeptide binding]; other site 498213009328 motif 1; other site 498213009329 active site 498213009330 motif 2; other site 498213009331 motif 3; other site 498213009332 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 498213009333 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 498213009334 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 498213009335 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 498213009336 TrkA-N domain; Region: TrkA_N; pfam02254 498213009337 TrkA-C domain; Region: TrkA_C; pfam02080 498213009338 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 498213009339 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 498213009340 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 498213009341 23S rRNA binding site [nucleotide binding]; other site 498213009342 L21 binding site [polypeptide binding]; other site 498213009343 L13 binding site [polypeptide binding]; other site 498213009344 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 498213009345 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 498213009346 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 498213009347 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 498213009348 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 498213009349 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 498213009350 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 498213009351 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 498213009352 active site 498213009353 dimer interface [polypeptide binding]; other site 498213009354 motif 1; other site 498213009355 motif 2; other site 498213009356 motif 3; other site 498213009357 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 498213009358 anticodon binding site; other site 498213009359 YtxC-like family; Region: YtxC; pfam08812 498213009360 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 498213009361 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 498213009362 Walker A/P-loop; other site 498213009363 ATP binding site [chemical binding]; other site 498213009364 Q-loop/lid; other site 498213009365 ABC transporter signature motif; other site 498213009366 Walker B; other site 498213009367 D-loop; other site 498213009368 H-loop/switch region; other site 498213009369 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 498213009370 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 498213009371 dimerization interface [polypeptide binding]; other site 498213009372 domain crossover interface; other site 498213009373 redox-dependent activation switch; other site 498213009374 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 498213009375 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 498213009376 S-adenosylmethionine binding site [chemical binding]; other site 498213009377 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 498213009378 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 498213009379 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 498213009380 Walker A/P-loop; other site 498213009381 ATP binding site [chemical binding]; other site 498213009382 Q-loop/lid; other site 498213009383 ABC transporter signature motif; other site 498213009384 Walker B; other site 498213009385 D-loop; other site 498213009386 H-loop/switch region; other site 498213009387 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 498213009388 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 498213009389 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 498213009390 Walker A/P-loop; other site 498213009391 ATP binding site [chemical binding]; other site 498213009392 Q-loop/lid; other site 498213009393 ABC transporter signature motif; other site 498213009394 Walker B; other site 498213009395 D-loop; other site 498213009396 H-loop/switch region; other site 498213009397 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 498213009398 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 498213009399 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 498213009400 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213009401 putative PBP binding loops; other site 498213009402 dimer interface [polypeptide binding]; other site 498213009403 ABC-ATPase subunit interface; other site 498213009404 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 498213009405 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213009406 dimer interface [polypeptide binding]; other site 498213009407 conserved gate region; other site 498213009408 putative PBP binding loops; other site 498213009409 ABC-ATPase subunit interface; other site 498213009410 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 498213009411 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 498213009412 peptide binding site [polypeptide binding]; other site 498213009413 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 498213009414 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 498213009415 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 498213009416 dihydrodipicolinate synthase; Region: dapA; TIGR00674 498213009417 dimer interface [polypeptide binding]; other site 498213009418 active site 498213009419 catalytic residue [active] 498213009420 dihydrodipicolinate reductase; Provisional; Region: PRK00048 498213009421 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 498213009422 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 498213009423 aminotransferase A; Validated; Region: PRK07683 498213009424 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 498213009425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213009426 homodimer interface [polypeptide binding]; other site 498213009427 catalytic residue [active] 498213009428 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 498213009429 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 498213009430 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 498213009431 trimer interface [polypeptide binding]; other site 498213009432 active site 498213009433 substrate binding site [chemical binding]; other site 498213009434 CoA binding site [chemical binding]; other site 498213009435 single-stranded DNA-binding protein; Provisional; Region: PRK05813 498213009436 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 498213009437 dimer interface [polypeptide binding]; other site 498213009438 ssDNA binding site [nucleotide binding]; other site 498213009439 tetramer (dimer of dimers) interface [polypeptide binding]; other site 498213009440 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 498213009441 NodB motif; other site 498213009442 active site 498213009443 catalytic site [active] 498213009444 metal binding site [ion binding]; metal-binding site 498213009445 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 498213009446 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 498213009447 uncharacterized protein TIGR03905; Region: TIGR03905_4_Cys 498213009448 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 498213009449 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 498213009450 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 498213009451 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 498213009452 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 498213009453 active site 498213009454 HIGH motif; other site 498213009455 nucleotide binding site [chemical binding]; other site 498213009456 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 498213009457 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 498213009458 active site 498213009459 KMSKS motif; other site 498213009460 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 498213009461 tRNA binding surface [nucleotide binding]; other site 498213009462 anticodon binding site; other site 498213009463 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 498213009464 putative acetyltransferase YhhY; Provisional; Region: PRK10140 498213009465 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213009466 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 498213009467 Coenzyme A binding pocket [chemical binding]; other site 498213009468 Peptidase S8 family domain, uncharacterized subfamily 8; Region: Peptidases_S8_8; cd07492 498213009469 active site 498213009470 catalytic triad [active] 498213009471 peptide maturation system acyl carrier-related protein; Region: ocin_ACP_rel; TIGR04069 498213009472 peptide maturation system protein, TIGR04066 family; Region: nat_prod_clost 498213009473 Cys-rich peptide radical SAM maturase CcpM; Region: rSAM_ocin_clost; TIGR04068 498213009474 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 498213009475 FeS/SAM binding site; other site 498213009476 putative bacteriocin precursor, CLI_3235 family; Region: ocin_CLI_3235; TIGR04065 498213009477 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 498213009478 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 498213009479 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213009480 Walker A/P-loop; other site 498213009481 ATP binding site [chemical binding]; other site 498213009482 Q-loop/lid; other site 498213009483 ABC transporter signature motif; other site 498213009484 Walker B; other site 498213009485 D-loop; other site 498213009486 H-loop/switch region; other site 498213009487 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 498213009488 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 498213009489 Walker A/P-loop; other site 498213009490 ATP binding site [chemical binding]; other site 498213009491 Q-loop/lid; other site 498213009492 ABC transporter signature motif; other site 498213009493 Walker B; other site 498213009494 D-loop; other site 498213009495 H-loop/switch region; other site 498213009496 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 498213009497 FtsX-like permease family; Region: FtsX; pfam02687 498213009498 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 498213009499 FtsX-like permease family; Region: FtsX; pfam02687 498213009500 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 498213009501 NMT1-like family; Region: NMT1_2; pfam13379 498213009502 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 498213009503 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 498213009504 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 498213009505 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 498213009506 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 498213009507 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 498213009508 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 498213009509 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 498213009510 Walker A/P-loop; other site 498213009511 ATP binding site [chemical binding]; other site 498213009512 Q-loop/lid; other site 498213009513 ABC transporter signature motif; other site 498213009514 Walker B; other site 498213009515 D-loop; other site 498213009516 H-loop/switch region; other site 498213009517 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 498213009518 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 498213009519 dimer interface [polypeptide binding]; other site 498213009520 conserved gate region; other site 498213009521 putative PBP binding loops; other site 498213009522 ABC-ATPase subunit interface; other site 498213009523 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 498213009524 TPR repeat; Region: TPR_11; pfam13414 498213009525 binding surface 498213009526 TPR motif; other site 498213009527 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 498213009528 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 498213009529 recombination regulator RecX; Provisional; Region: recX; PRK14134 498213009530 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 498213009531 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 498213009532 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 498213009533 QueT transporter; Region: QueT; pfam06177 498213009534 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 498213009535 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 498213009536 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 498213009537 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 498213009538 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 498213009539 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 498213009540 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 498213009541 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 498213009542 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 498213009543 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 498213009544 dimer interface [polypeptide binding]; other site 498213009545 active site 498213009546 glycine loop; other site 498213009547 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 498213009548 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 498213009549 sequence-specific DNA binding site [nucleotide binding]; other site 498213009550 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 498213009551 salt bridge; other site 498213009552 Cupin domain; Region: Cupin_2; pfam07883 498213009553 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 498213009554 Dimer interface [polypeptide binding]; other site 498213009555 BRCT sequence motif; other site 498213009556 agmatine deiminase; Region: agmatine_aguA; TIGR03380 498213009557 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2425 498213009558 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 498213009559 metal ion-dependent adhesion site (MIDAS); other site 498213009560 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 498213009561 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 498213009562 Walker A motif; other site 498213009563 ATP binding site [chemical binding]; other site 498213009564 Walker B motif; other site 498213009565 arginine finger; other site 498213009566 Saccharopine dehydrogenase N-terminal domain; Region: SDH_N_domain; cl04528 498213009567 Uncharacterized conserved protein [Function unknown]; Region: COG1915 498213009568 Uncharacterized conserved protein [Function unknown]; Region: COG1915 498213009569 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 498213009570 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 498213009571 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 498213009572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 498213009573 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 498213009574 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 498213009575 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 498213009576 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 498213009577 Walker A motif; other site 498213009578 ATP binding site [chemical binding]; other site 498213009579 Walker B motif; other site 498213009580 arginine finger; other site 498213009581 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 498213009582 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 498213009583 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 498213009584 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 498213009585 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 498213009586 Ligand binding site [chemical binding]; other site 498213009587 Electron transfer flavoprotein domain; Region: ETF; pfam01012 498213009588 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 498213009589 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 498213009590 FAD binding site [chemical binding]; other site 498213009591 homotetramer interface [polypeptide binding]; other site 498213009592 substrate binding pocket [chemical binding]; other site 498213009593 catalytic base [active] 498213009594 putative acyltransferase; Provisional; Region: PRK05790 498213009595 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 498213009596 dimer interface [polypeptide binding]; other site 498213009597 active site 498213009598 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 498213009599 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 498213009600 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 498213009601 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 498213009602 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 498213009603 substrate binding site [chemical binding]; other site 498213009604 oxyanion hole (OAH) forming residues; other site 498213009605 trimer interface [polypeptide binding]; other site 498213009606 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 498213009607 GIY-YIG motif/motif A; other site 498213009608 active site 498213009609 catalytic site [active] 498213009610 putative DNA binding site [nucleotide binding]; other site 498213009611 metal binding site [ion binding]; metal-binding site 498213009612 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 498213009613 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 498213009614 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498213009615 Zn2+ binding site [ion binding]; other site 498213009616 Mg2+ binding site [ion binding]; other site 498213009617 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 498213009618 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 498213009619 homotetramer interface [polypeptide binding]; other site 498213009620 active site 498213009621 metal binding site [ion binding]; metal-binding site 498213009622 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 498213009623 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 498213009624 active site 498213009625 catalytic site [active] 498213009626 metal binding site [ion binding]; metal-binding site 498213009627 dimer interface [polypeptide binding]; other site 498213009628 Cache domain; Region: Cache_1; pfam02743 498213009629 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498213009630 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213009631 dimer interface [polypeptide binding]; other site 498213009632 putative CheW interface [polypeptide binding]; other site 498213009633 Rubredoxin [Energy production and conversion]; Region: COG1773 498213009634 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 498213009635 iron binding site [ion binding]; other site 498213009636 Rubrerythrin [Energy production and conversion]; Region: COG1592 498213009637 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 498213009638 diiron binding motif [ion binding]; other site 498213009639 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 498213009640 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 498213009641 FeS/SAM binding site; other site 498213009642 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 498213009643 Pyruvate formate lyase 1; Region: PFL1; cd01678 498213009644 coenzyme A binding site [chemical binding]; other site 498213009645 active site 498213009646 catalytic residues [active] 498213009647 glycine loop; other site 498213009648 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 498213009649 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 498213009650 5S rRNA interface [nucleotide binding]; other site 498213009651 CTC domain interface [polypeptide binding]; other site 498213009652 L16 interface [polypeptide binding]; other site 498213009653 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 498213009654 metal binding site 2 [ion binding]; metal-binding site 498213009655 putative DNA binding helix; other site 498213009656 metal binding site 1 [ion binding]; metal-binding site 498213009657 dimer interface [polypeptide binding]; other site 498213009658 structural Zn2+ binding site [ion binding]; other site 498213009659 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 498213009660 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 498213009661 Predicted transcriptional regulator [Transcription]; Region: COG2378 498213009662 HTH domain; Region: HTH_11; pfam08279 498213009663 WYL domain; Region: WYL; pfam13280 498213009664 CAAX protease self-immunity; Region: Abi; pfam02517 498213009665 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 498213009666 G1 box; other site 498213009667 GTP/Mg2+ binding site [chemical binding]; other site 498213009668 Switch I region; other site 498213009669 G2 box; other site 498213009670 G3 box; other site 498213009671 Switch II region; other site 498213009672 G4 box; other site 498213009673 G5 box; other site 498213009674 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 498213009675 Found in ATP-dependent protease La (LON); Region: LON; smart00464 498213009676 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 498213009677 Walker A motif; other site 498213009678 ATP binding site [chemical binding]; other site 498213009679 Walker B motif; other site 498213009680 arginine finger; other site 498213009681 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 498213009682 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 498213009683 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 498213009684 Walker A motif; other site 498213009685 ATP binding site [chemical binding]; other site 498213009686 Walker B motif; other site 498213009687 arginine finger; other site 498213009688 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 498213009689 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 498213009690 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 498213009691 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 498213009692 Walker A motif; other site 498213009693 ATP binding site [chemical binding]; other site 498213009694 Walker B motif; other site 498213009695 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 498213009696 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 498213009697 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 498213009698 oligomer interface [polypeptide binding]; other site 498213009699 active site residues [active] 498213009700 trigger factor; Provisional; Region: tig; PRK01490 498213009701 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 498213009702 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 498213009703 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 498213009704 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 498213009705 DNA interaction; other site 498213009706 Metal-binding active site; metal-binding site 498213009707 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 498213009708 active site 498213009709 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 498213009710 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 498213009711 heterodimer interface [polypeptide binding]; other site 498213009712 active site 498213009713 FMN binding site [chemical binding]; other site 498213009714 homodimer interface [polypeptide binding]; other site 498213009715 substrate binding site [chemical binding]; other site 498213009716 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 498213009717 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 498213009718 FAD binding pocket [chemical binding]; other site 498213009719 FAD binding motif [chemical binding]; other site 498213009720 phosphate binding motif [ion binding]; other site 498213009721 beta-alpha-beta structure motif; other site 498213009722 NAD binding pocket [chemical binding]; other site 498213009723 Iron coordination center [ion binding]; other site 498213009724 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 498213009725 active site 498213009726 dimer interface [polypeptide binding]; other site 498213009727 dihydroorotase; Validated; Region: pyrC; PRK09357 498213009728 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 498213009729 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 498213009730 active site 498213009731 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 498213009732 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 498213009733 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 498213009734 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 498213009735 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 498213009736 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 498213009737 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 498213009738 nucleotide binding site [chemical binding]; other site 498213009739 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 498213009740 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 498213009741 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 498213009742 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 498213009743 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 498213009744 active site 498213009745 metal binding site [ion binding]; metal-binding site 498213009746 homotetramer interface [polypeptide binding]; other site 498213009747 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 498213009748 active site 498213009749 dimerization interface [polypeptide binding]; other site 498213009750 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 498213009751 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 498213009752 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 498213009753 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 498213009754 GatB domain; Region: GatB_Yqey; smart00845 498213009755 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 498213009756 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 498213009757 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 498213009758 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 498213009759 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 498213009760 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 498213009761 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 498213009762 nucleotide binding pocket [chemical binding]; other site 498213009763 K-X-D-G motif; other site 498213009764 catalytic site [active] 498213009765 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 498213009766 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 498213009767 Helix-hairpin-helix motif; Region: HHH; pfam00633 498213009768 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 498213009769 Dimer interface [polypeptide binding]; other site 498213009770 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 498213009771 Part of AAA domain; Region: AAA_19; pfam13245 498213009772 Family description; Region: UvrD_C_2; pfam13538 498213009773 Trp repressor protein; Region: Trp_repressor; cl17266 498213009774 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 498213009775 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 498213009776 RNA binding surface [nucleotide binding]; other site 498213009777 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 498213009778 active site 498213009779 uracil binding [chemical binding]; other site 498213009780 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 498213009781 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 498213009782 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 498213009783 N-acetyl-D-glucosamine binding site [chemical binding]; other site 498213009784 catalytic residue [active] 498213009785 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 498213009786 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 498213009787 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 498213009788 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 498213009789 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 498213009790 hypothetical protein; Validated; Region: PRK00124 498213009791 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 498213009792 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 498213009793 active site 498213009794 dimer interface [polypeptide binding]; other site 498213009795 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 498213009796 dimer interface [polypeptide binding]; other site 498213009797 active site 498213009798 Probable zinc-binding domain; Region: zf-trcl; pfam13451 498213009799 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 498213009800 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 498213009801 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213009802 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 498213009803 Coenzyme A binding pocket [chemical binding]; other site 498213009804 D-lactate dehydrogenase; Validated; Region: PRK08605 498213009805 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 498213009806 homodimer interface [polypeptide binding]; other site 498213009807 ligand binding site [chemical binding]; other site 498213009808 NAD binding site [chemical binding]; other site 498213009809 catalytic site [active] 498213009810 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 498213009811 Putative Lactate dehydrogenase and (R)-2-Hydroxyglutarate Dehydrogenase-like proteins, NAD-binding and catalytic domains; Region: HGDH_LDH_like; cd12185 498213009812 putative ligand binding site [chemical binding]; other site 498213009813 putative NAD binding site [chemical binding]; other site 498213009814 catalytic site [active] 498213009815 Uncharacterized membrane protein [Function unknown]; Region: COG3949 498213009816 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 498213009817 4Fe-4S binding domain; Region: Fer4; pfam00037 498213009818 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 498213009819 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 498213009820 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 498213009821 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 498213009822 Ligand binding site [chemical binding]; other site 498213009823 Electron transfer flavoprotein domain; Region: ETF; pfam01012 498213009824 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 498213009825 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 498213009826 active site 498213009827 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 498213009828 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 498213009829 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 498213009830 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 498213009831 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 498213009832 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 498213009833 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 498213009834 CoA-transferase family III; Region: CoA_transf_3; pfam02515 498213009835 AMP-binding domain protein; Validated; Region: PRK08315 498213009836 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 498213009837 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 498213009838 acyl-activating enzyme (AAE) consensus motif; other site 498213009839 putative AMP binding site [chemical binding]; other site 498213009840 putative active site [active] 498213009841 putative CoA binding site [chemical binding]; other site 498213009842 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 498213009843 GMP synthase; Reviewed; Region: guaA; PRK00074 498213009844 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 498213009845 AMP/PPi binding site [chemical binding]; other site 498213009846 candidate oxyanion hole; other site 498213009847 catalytic triad [active] 498213009848 potential glutamine specificity residues [chemical binding]; other site 498213009849 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 498213009850 ATP Binding subdomain [chemical binding]; other site 498213009851 Ligand Binding sites [chemical binding]; other site 498213009852 Dimerization subdomain; other site 498213009853 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 498213009854 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 498213009855 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 498213009856 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 498213009857 active site 498213009858 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 498213009859 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 498213009860 Ligand Binding Site [chemical binding]; other site 498213009861 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 498213009862 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 498213009863 ring oligomerisation interface [polypeptide binding]; other site 498213009864 ATP/Mg binding site [chemical binding]; other site 498213009865 stacking interactions; other site 498213009866 hinge regions; other site 498213009867 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 498213009868 oligomerisation interface [polypeptide binding]; other site 498213009869 mobile loop; other site 498213009870 roof hairpin; other site 498213009871 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 498213009872 Uncharacterized conserved protein [Function unknown]; Region: COG0398 498213009873 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 498213009874 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 498213009875 4Fe-4S binding domain; Region: Fer4; pfam00037 498213009876 4Fe-4S binding domain; Region: Fer4; pfam00037 498213009877 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 498213009878 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 498213009879 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 498213009880 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 498213009881 minor groove reading motif; other site 498213009882 helix-hairpin-helix signature motif; other site 498213009883 substrate binding pocket [chemical binding]; other site 498213009884 active site 498213009885 putative oxidoreductase; Provisional; Region: PRK12831 498213009886 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 498213009887 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 498213009888 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 498213009889 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 498213009890 FAD binding pocket [chemical binding]; other site 498213009891 FAD binding motif [chemical binding]; other site 498213009892 phosphate binding motif [ion binding]; other site 498213009893 beta-alpha-beta structure motif; other site 498213009894 NAD binding pocket [chemical binding]; other site 498213009895 Iron coordination center [ion binding]; other site 498213009896 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 498213009897 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 498213009898 CoA binding domain; Region: CoA_binding; pfam02629 498213009899 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 498213009900 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213009901 Walker A/P-loop; other site 498213009902 ATP binding site [chemical binding]; other site 498213009903 Q-loop/lid; other site 498213009904 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 498213009905 ABC transporter; Region: ABC_tran_2; pfam12848 498213009906 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 498213009907 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 498213009908 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 498213009909 active site 498213009910 phosphorylation site [posttranslational modification] 498213009911 intermolecular recognition site; other site 498213009912 dimerization interface [polypeptide binding]; other site 498213009913 LytTr DNA-binding domain; Region: LytTR; pfam04397 498213009914 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 498213009915 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 498213009916 Histidine kinase; Region: His_kinase; pfam06580 498213009917 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 498213009918 ATP binding site [chemical binding]; other site 498213009919 Mg2+ binding site [ion binding]; other site 498213009920 G-X-G motif; other site 498213009921 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 498213009922 Carbon starvation protein CstA; Region: CstA; pfam02554 498213009923 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 498213009924 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 498213009925 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 498213009926 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 498213009927 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 498213009928 Peptidase M16C associated; Region: M16C_assoc; pfam08367 498213009929 pyruvate carboxylase; Reviewed; Region: PRK12999 498213009930 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 498213009931 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 498213009932 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 498213009933 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 498213009934 active site 498213009935 catalytic residues [active] 498213009936 metal binding site [ion binding]; metal-binding site 498213009937 homodimer binding site [polypeptide binding]; other site 498213009938 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 498213009939 carboxyltransferase (CT) interaction site; other site 498213009940 biotinylation site [posttranslational modification]; other site 498213009941 UGMP family protein; Validated; Region: PRK09604 498213009942 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 498213009943 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 498213009944 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 498213009945 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 498213009946 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 498213009947 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 498213009948 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 498213009949 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 498213009950 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 498213009951 intersubunit interface [polypeptide binding]; other site 498213009952 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498213009953 Zn2+ binding site [ion binding]; other site 498213009954 Mg2+ binding site [ion binding]; other site 498213009955 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 498213009956 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498213009957 Zn2+ binding site [ion binding]; other site 498213009958 Mg2+ binding site [ion binding]; other site 498213009959 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 498213009960 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 498213009961 Glycoprotease family; Region: Peptidase_M22; pfam00814 498213009962 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 498213009963 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213009964 Coenzyme A binding pocket [chemical binding]; other site 498213009965 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 498213009966 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 498213009967 active site 498213009968 HIGH motif; other site 498213009969 dimer interface [polypeptide binding]; other site 498213009970 KMSKS motif; other site 498213009971 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 498213009972 RNA binding surface [nucleotide binding]; other site 498213009973 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 498213009974 Divergent AAA domain; Region: AAA_4; pfam04326 498213009975 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 498213009976 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 498213009977 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 498213009978 active site 498213009979 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 498213009980 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 498213009981 G1 box; other site 498213009982 putative GEF interaction site [polypeptide binding]; other site 498213009983 GTP/Mg2+ binding site [chemical binding]; other site 498213009984 Switch I region; other site 498213009985 G2 box; other site 498213009986 G3 box; other site 498213009987 Switch II region; other site 498213009988 G4 box; other site 498213009989 G5 box; other site 498213009990 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 498213009991 sugar phosphate phosphatase; Provisional; Region: PRK10513 498213009992 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 498213009993 active site 498213009994 motif I; other site 498213009995 motif II; other site 498213009996 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 498213009997 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 498213009998 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 498213009999 active site 498213010000 HIGH motif; other site 498213010001 dimer interface [polypeptide binding]; other site 498213010002 KMSKS motif; other site 498213010003 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 498213010004 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 498213010005 non-heme iron binding site [ion binding]; other site 498213010006 dimer interface [polypeptide binding]; other site 498213010007 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 498213010008 non-heme iron binding site [ion binding]; other site 498213010009 dimer interface [polypeptide binding]; other site 498213010010 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 498213010011 Putative glucoamylase; Region: Glycoamylase; pfam10091 498213010012 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 498213010013 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 498213010014 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 498213010015 diaminopimelate decarboxylase; Region: lysA; TIGR01048 498213010016 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 498213010017 active site 498213010018 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 498213010019 substrate binding site [chemical binding]; other site 498213010020 catalytic residues [active] 498213010021 dimer interface [polypeptide binding]; other site 498213010022 aspartate kinase; Reviewed; Region: PRK06635 498213010023 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 498213010024 putative nucleotide binding site [chemical binding]; other site 498213010025 putative catalytic residues [active] 498213010026 putative Mg ion binding site [ion binding]; other site 498213010027 putative aspartate binding site [chemical binding]; other site 498213010028 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 498213010029 putative allosteric regulatory site; other site 498213010030 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 498213010031 putative allosteric regulatory residue; other site 498213010032 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 498213010033 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 498213010034 active site 498213010035 metal binding site [ion binding]; metal-binding site 498213010036 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 498213010037 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 498213010038 hypothetical protein; Provisional; Region: PRK06851 498213010039 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 498213010040 Part of AAA domain; Region: AAA_19; pfam13245 498213010041 FtsH Extracellular; Region: FtsH_ext; pfam06480 498213010042 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 498213010043 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 498213010044 Walker A motif; other site 498213010045 ATP binding site [chemical binding]; other site 498213010046 Walker B motif; other site 498213010047 arginine finger; other site 498213010048 Peptidase family M41; Region: Peptidase_M41; pfam01434 498213010049 dipeptidase PepV; Reviewed; Region: PRK07318 498213010050 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 498213010051 active site 498213010052 metal binding site [ion binding]; metal-binding site 498213010053 prolyl-tRNA synthetase; Provisional; Region: PRK08661 498213010054 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_arch_euk; cd00778 498213010055 dimer interface [polypeptide binding]; other site 498213010056 motif 1; other site 498213010057 active site 498213010058 motif 2; other site 498213010059 motif 3; other site 498213010060 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 498213010061 anticodon binding site; other site 498213010062 zinc-binding site [ion binding]; other site 498213010063 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 498213010064 GIY-YIG motif/motif A; other site 498213010065 putative active site [active] 498213010066 putative metal binding site [ion binding]; other site 498213010067 putative transporter; Provisional; Region: PRK11660 498213010068 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 498213010069 Sulfate transporter family; Region: Sulfate_transp; pfam00916 498213010070 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 498213010071 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213010072 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 498213010073 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 498213010074 dimer interface [polypeptide binding]; other site 498213010075 phosphorylation site [posttranslational modification] 498213010076 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 498213010077 ATP binding site [chemical binding]; other site 498213010078 Mg2+ binding site [ion binding]; other site 498213010079 G-X-G motif; other site 498213010080 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213010081 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 498213010082 active site 498213010083 phosphorylation site [posttranslational modification] 498213010084 intermolecular recognition site; other site 498213010085 dimerization interface [polypeptide binding]; other site 498213010086 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 498213010087 DNA binding site [nucleotide binding] 498213010088 Protein of unknown function (DUF1168); Region: DUF1168; pfam06658 498213010089 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 498213010090 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 498213010091 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 498213010092 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213010093 Walker A/P-loop; other site 498213010094 ATP binding site [chemical binding]; other site 498213010095 Q-loop/lid; other site 498213010096 ABC transporter signature motif; other site 498213010097 Walker B; other site 498213010098 D-loop; other site 498213010099 H-loop/switch region; other site 498213010100 Uncharacterized conserved protein [Function unknown]; Region: COG3589 498213010101 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 498213010102 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 498213010103 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 498213010104 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 498213010105 methionine cluster; other site 498213010106 active site 498213010107 phosphorylation site [posttranslational modification] 498213010108 metal binding site [ion binding]; metal-binding site 498213010109 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 498213010110 active site 498213010111 P-loop; other site 498213010112 phosphorylation site [posttranslational modification] 498213010113 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 498213010114 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 498213010115 Walker A motif; other site 498213010116 ATP binding site [chemical binding]; other site 498213010117 Walker B motif; other site 498213010118 arginine finger; other site 498213010119 Transcriptional antiterminator [Transcription]; Region: COG3933 498213010120 PRD domain; Region: PRD; pfam00874 498213010121 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 498213010122 active pocket/dimerization site; other site 498213010123 active site 498213010124 phosphorylation site [posttranslational modification] 498213010125 PRD domain; Region: PRD; pfam00874 498213010126 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 498213010127 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 498213010128 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 498213010129 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 498213010130 NAD binding site [chemical binding]; other site 498213010131 sugar binding site [chemical binding]; other site 498213010132 divalent metal binding site [ion binding]; other site 498213010133 tetramer (dimer of dimers) interface [polypeptide binding]; other site 498213010134 dimer interface [polypeptide binding]; other site 498213010135 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 498213010136 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 498213010137 metal binding site [ion binding]; metal-binding site 498213010138 active site 498213010139 I-site; other site 498213010140 Phage integrase family; Region: Phage_integrase; pfam00589 498213010141 active site 498213010142 DNA binding site [nucleotide binding] 498213010143 Int/Topo IB signature motif; other site 498213010144 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 498213010145 Protein of unknown function DUF43; Region: DUF43; pfam01861 498213010146 Mor transcription activator family; Region: Mor; cl02360 498213010147 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 498213010148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498213010149 NmrA-like family; Region: NmrA; pfam05368 498213010150 NAD(P) binding site [chemical binding]; other site 498213010151 active site 498213010152 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 498213010153 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 498213010154 active site 498213010155 catalytic tetrad [active] 498213010156 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 498213010157 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 498213010158 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 498213010159 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 498213010160 DNA binding residues [nucleotide binding] 498213010161 putative dimer interface [polypeptide binding]; other site 498213010162 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 498213010163 active site 498213010164 catalytic motif [active] 498213010165 Zn binding site [ion binding]; other site 498213010166 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 498213010167 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498213010168 NAD(P) binding site [chemical binding]; other site 498213010169 active site 498213010170 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 498213010171 RibD C-terminal domain; Region: RibD_C; cl17279 498213010172 Protein of unknown function, DUF606; Region: DUF606; pfam04657 498213010173 Protein of unknown function, DUF606; Region: DUF606; pfam04657 498213010174 Rrf2 family protein; Region: rrf2_super; TIGR00738 498213010175 Transcriptional regulator; Region: Rrf2; pfam02082 498213010176 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498213010177 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 498213010178 Coenzyme A binding pocket [chemical binding]; other site 498213010179 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 498213010180 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 498213010181 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 498213010182 S-adenosylmethionine binding site [chemical binding]; other site 498213010183 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 498213010184 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 498213010185 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 498213010186 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 498213010187 active site 498213010188 catalytic tetrad [active] 498213010189 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 498213010190 pyruvate kinase; Provisional; Region: PRK06354 498213010191 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 498213010192 domain interfaces; other site 498213010193 active site 498213010194 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 498213010195 6-phosphofructokinase; Provisional; Region: PRK03202 498213010196 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 498213010197 active site 498213010198 ADP/pyrophosphate binding site [chemical binding]; other site 498213010199 dimerization interface [polypeptide binding]; other site 498213010200 allosteric effector site; other site 498213010201 fructose-1,6-bisphosphate binding site; other site 498213010202 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 498213010203 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 498213010204 active site 498213010205 PHP Thumb interface [polypeptide binding]; other site 498213010206 metal binding site [ion binding]; metal-binding site 498213010207 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 498213010208 generic binding surface II; other site 498213010209 generic binding surface I; other site 498213010210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 498213010211 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 498213010212 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 498213010213 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 498213010214 phosphate binding site [ion binding]; other site 498213010215 putative substrate binding pocket [chemical binding]; other site 498213010216 dimer interface [polypeptide binding]; other site 498213010217 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 498213010218 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 498213010219 FAD binding domain; Region: FAD_binding_4; pfam01565 498213010220 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 498213010221 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 498213010222 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 498213010223 active site 498213010224 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 498213010225 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 498213010226 GIY-YIG motif/motif A; other site 498213010227 active site 498213010228 catalytic site [active] 498213010229 putative DNA binding site [nucleotide binding]; other site 498213010230 metal binding site [ion binding]; metal-binding site 498213010231 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 498213010232 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 498213010233 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 498213010234 generic binding surface II; other site 498213010235 generic binding surface I; other site 498213010236 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498213010237 Zn2+ binding site [ion binding]; other site 498213010238 Mg2+ binding site [ion binding]; other site 498213010239 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 498213010240 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 498213010241 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 498213010242 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 498213010243 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 498213010244 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 498213010245 phosphopeptide binding site; other site 498213010246 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 498213010247 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 498213010248 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 498213010249 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 498213010250 excinuclease ABC subunit B; Provisional; Region: PRK05298 498213010251 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 498213010252 ATP binding site [chemical binding]; other site 498213010253 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 498213010254 nucleotide binding region [chemical binding]; other site 498213010255 ATP-binding site [chemical binding]; other site 498213010256 Ultra-violet resistance protein B; Region: UvrB; pfam12344 498213010257 UvrB/uvrC motif; Region: UVR; pfam02151 498213010258 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 498213010259 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 498213010260 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 498213010261 C-terminal peptidase (prc); Region: prc; TIGR00225 498213010262 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 498213010263 protein binding site [polypeptide binding]; other site 498213010264 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 498213010265 Catalytic dyad [active] 498213010266 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 498213010267 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 498213010268 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 498213010269 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 498213010270 Walker A/P-loop; other site 498213010271 ATP binding site [chemical binding]; other site 498213010272 Q-loop/lid; other site 498213010273 ABC transporter signature motif; other site 498213010274 Walker B; other site 498213010275 D-loop; other site 498213010276 H-loop/switch region; other site 498213010277 Uncharacterized conserved protein [Function unknown]; Region: COG1284 498213010278 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 498213010279 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 498213010280 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 498213010281 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 498213010282 PYR/PP interface [polypeptide binding]; other site 498213010283 dimer interface [polypeptide binding]; other site 498213010284 TPP binding site [chemical binding]; other site 498213010285 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 498213010286 transketolase; Reviewed; Region: PRK05899 498213010287 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 498213010288 TPP-binding site [chemical binding]; other site 498213010289 dimer interface [polypeptide binding]; other site 498213010290 PemK-like protein; Region: PemK; pfam02452 498213010291 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 498213010292 alanine racemase; Reviewed; Region: alr; PRK00053 498213010293 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 498213010294 active site 498213010295 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 498213010296 dimer interface [polypeptide binding]; other site 498213010297 substrate binding site [chemical binding]; other site 498213010298 catalytic residues [active] 498213010299 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 498213010300 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 498213010301 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 498213010302 putative substrate binding site [chemical binding]; other site 498213010303 putative ATP binding site [chemical binding]; other site 498213010304 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 498213010305 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 498213010306 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 498213010307 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 498213010308 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 498213010309 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 498213010310 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 498213010311 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 498213010312 RNA binding surface [nucleotide binding]; other site 498213010313 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 498213010314 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 498213010315 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 498213010316 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 498213010317 active site 498213010318 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 498213010319 active site 498213010320 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 498213010321 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 498213010322 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 498213010323 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 498213010324 dinuclear metal binding motif [ion binding]; other site 498213010325 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 498213010326 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 498213010327 glutaminase active site [active] 498213010328 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 498213010329 dimer interface [polypeptide binding]; other site 498213010330 active site 498213010331 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 498213010332 dimer interface [polypeptide binding]; other site 498213010333 active site 498213010334 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 498213010335 active site 498213010336 intersubunit interactions; other site 498213010337 catalytic residue [active] 498213010338 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 498213010339 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 498213010340 motif II; other site 498213010341 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 498213010342 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498213010343 NAD(P) binding site [chemical binding]; other site 498213010344 active site 498213010345 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 498213010346 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 498213010347 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 498213010348 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 498213010349 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; pfam03608 498213010350 Glucitol operon activator protein (GutM); Region: GutM; pfam06923 498213010351 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 498213010352 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 498213010353 putative NAD(P) binding site [chemical binding]; other site 498213010354 catalytic Zn binding site [ion binding]; other site 498213010355 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 498213010356 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 498213010357 non-specific DNA interactions [nucleotide binding]; other site 498213010358 DNA binding site [nucleotide binding] 498213010359 sequence specific DNA binding site [nucleotide binding]; other site 498213010360 putative cAMP binding site [chemical binding]; other site 498213010361 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 498213010362 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 498213010363 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 498213010364 active site 498213010365 substrate binding site [chemical binding]; other site 498213010366 metal binding site [ion binding]; metal-binding site 498213010367 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 498213010368 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 498213010369 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 498213010370 TPP-binding site [chemical binding]; other site 498213010371 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 498213010372 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 498213010373 dimer interface [polypeptide binding]; other site 498213010374 PYR/PP interface [polypeptide binding]; other site 498213010375 TPP binding site [chemical binding]; other site 498213010376 substrate binding site [chemical binding]; other site 498213010377 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 498213010378 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 498213010379 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 498213010380 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 498213010381 P-loop; other site 498213010382 Magnesium ion binding site [ion binding]; other site 498213010383 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 498213010384 nucleotide binding site [chemical binding]; other site 498213010385 Acetokinase family; Region: Acetate_kinase; cl17229 498213010386 phosphate butyryltransferase; Validated; Region: PRK05805 498213010387 butyrate kinase; Provisional; Region: PRK03011 498213010388 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 498213010389 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 498213010390 YbbR-like protein; Region: YbbR; pfam07949 498213010391 Uncharacterized conserved protein [Function unknown]; Region: COG1624 498213010392 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 498213010393 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 498213010394 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 498213010395 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 498213010396 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 498213010397 catalytic residues [active] 498213010398 isoaspartyl dipeptidase; Provisional; Region: PRK10657 498213010399 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 498213010400 active site 498213010401 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 498213010402 TPR motif; other site 498213010403 Tetratricopeptide repeat; Region: TPR_12; pfam13424 498213010404 binding surface 498213010405 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 498213010406 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 498213010407 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 498213010408 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 498213010409 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 498213010410 dimerization domain swap beta strand [polypeptide binding]; other site 498213010411 regulatory protein interface [polypeptide binding]; other site 498213010412 active site 498213010413 regulatory phosphorylation site [posttranslational modification]; other site 498213010414 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 498213010415 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 498213010416 putative active site [active] 498213010417 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 498213010418 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 498213010419 Walker A motif; other site 498213010420 ATP binding site [chemical binding]; other site 498213010421 Walker B motif; other site 498213010422 arginine finger; other site 498213010423 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 498213010424 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 498213010425 binding surface 498213010426 TPR motif; other site 498213010427 Tetratricopeptide repeat; Region: TPR_12; pfam13424 498213010428 fumarate hydratase; Provisional; Region: PRK06842 498213010429 fumarate hydratase; Provisional; Region: PRK06246 498213010430 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 498213010431 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 498213010432 active site 498213010433 metal binding site [ion binding]; metal-binding site 498213010434 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 498213010435 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 498213010436 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 498213010437 PhoU domain; Region: PhoU; pfam01895 498213010438 PhoU domain; Region: PhoU; pfam01895 498213010439 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 498213010440 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 498213010441 23S rRNA interface [nucleotide binding]; other site 498213010442 L3 interface [polypeptide binding]; other site 498213010443 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 498213010444 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 498213010445 dimerization interface 3.5A [polypeptide binding]; other site 498213010446 active site 498213010447 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 498213010448 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 498213010449 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 498213010450 Walker A/P-loop; other site 498213010451 ATP binding site [chemical binding]; other site 498213010452 Q-loop/lid; other site 498213010453 ABC transporter signature motif; other site 498213010454 Walker B; other site 498213010455 D-loop; other site 498213010456 H-loop/switch region; other site 498213010457 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 498213010458 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 498213010459 Walker A/P-loop; other site 498213010460 ATP binding site [chemical binding]; other site 498213010461 Q-loop/lid; other site 498213010462 ABC transporter signature motif; other site 498213010463 Walker B; other site 498213010464 D-loop; other site 498213010465 H-loop/switch region; other site 498213010466 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 498213010467 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 498213010468 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 498213010469 alphaNTD homodimer interface [polypeptide binding]; other site 498213010470 alphaNTD - beta interaction site [polypeptide binding]; other site 498213010471 alphaNTD - beta' interaction site [polypeptide binding]; other site 498213010472 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 498213010473 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 498213010474 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 498213010475 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 498213010476 RNA binding surface [nucleotide binding]; other site 498213010477 30S ribosomal protein S11; Validated; Region: PRK05309 498213010478 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 498213010479 30S ribosomal protein S13; Region: bact_S13; TIGR03631 498213010480 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 498213010481 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 498213010482 rRNA binding site [nucleotide binding]; other site 498213010483 predicted 30S ribosome binding site; other site 498213010484 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 498213010485 RNA binding site [nucleotide binding]; other site 498213010486 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 498213010487 active site 498213010488 adenylate kinase; Reviewed; Region: adk; PRK00279 498213010489 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 498213010490 AMP-binding site [chemical binding]; other site 498213010491 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 498213010492 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 498213010493 SecY translocase; Region: SecY; pfam00344 498213010494 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 498213010495 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 498213010496 23S rRNA binding site [nucleotide binding]; other site 498213010497 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 498213010498 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 498213010499 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 498213010500 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 498213010501 5S rRNA interface [nucleotide binding]; other site 498213010502 L27 interface [polypeptide binding]; other site 498213010503 23S rRNA interface [nucleotide binding]; other site 498213010504 L5 interface [polypeptide binding]; other site 498213010505 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 498213010506 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 498213010507 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 498213010508 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 498213010509 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 498213010510 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 498213010511 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 498213010512 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 498213010513 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 498213010514 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 498213010515 RNA binding site [nucleotide binding]; other site 498213010516 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 498213010517 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 498213010518 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 498213010519 23S rRNA interface [nucleotide binding]; other site 498213010520 putative translocon interaction site; other site 498213010521 signal recognition particle (SRP54) interaction site; other site 498213010522 L23 interface [polypeptide binding]; other site 498213010523 trigger factor interaction site; other site 498213010524 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 498213010525 23S rRNA interface [nucleotide binding]; other site 498213010526 5S rRNA interface [nucleotide binding]; other site 498213010527 putative antibiotic binding site [chemical binding]; other site 498213010528 L25 interface [polypeptide binding]; other site 498213010529 L27 interface [polypeptide binding]; other site 498213010530 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 498213010531 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 498213010532 G-X-X-G motif; other site 498213010533 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 498213010534 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 498213010535 putative translocon binding site; other site 498213010536 protein-rRNA interface [nucleotide binding]; other site 498213010537 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 498213010538 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 498213010539 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 498213010540 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 498213010541 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 498213010542 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 498213010543 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 498213010544 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 498213010545 elongation factor Tu; Reviewed; Region: PRK00049 498213010546 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 498213010547 G1 box; other site 498213010548 GEF interaction site [polypeptide binding]; other site 498213010549 GTP/Mg2+ binding site [chemical binding]; other site 498213010550 Switch I region; other site 498213010551 G2 box; other site 498213010552 G3 box; other site 498213010553 Switch II region; other site 498213010554 G4 box; other site 498213010555 G5 box; other site 498213010556 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 498213010557 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 498213010558 Antibiotic Binding Site [chemical binding]; other site 498213010559 elongation factor G; Reviewed; Region: PRK00007 498213010560 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 498213010561 G1 box; other site 498213010562 putative GEF interaction site [polypeptide binding]; other site 498213010563 GTP/Mg2+ binding site [chemical binding]; other site 498213010564 Switch I region; other site 498213010565 G2 box; other site 498213010566 G3 box; other site 498213010567 Switch II region; other site 498213010568 G4 box; other site 498213010569 G5 box; other site 498213010570 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 498213010571 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 498213010572 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 498213010573 30S ribosomal protein S7; Validated; Region: PRK05302 498213010574 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 498213010575 S17 interaction site [polypeptide binding]; other site 498213010576 S8 interaction site; other site 498213010577 16S rRNA interaction site [nucleotide binding]; other site 498213010578 streptomycin interaction site [chemical binding]; other site 498213010579 23S rRNA interaction site [nucleotide binding]; other site 498213010580 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 498213010581 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 498213010582 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 498213010583 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 498213010584 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 498213010585 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 498213010586 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 498213010587 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 498213010588 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 498213010589 G-loop; other site 498213010590 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 498213010591 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 498213010592 DNA binding site [nucleotide binding] 498213010593 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 498213010594 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 498213010595 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 498213010596 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 498213010597 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 498213010598 RPB1 interaction site [polypeptide binding]; other site 498213010599 RPB10 interaction site [polypeptide binding]; other site 498213010600 RPB11 interaction site [polypeptide binding]; other site 498213010601 RPB3 interaction site [polypeptide binding]; other site 498213010602 RPB12 interaction site [polypeptide binding]; other site 498213010603 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 498213010604 core dimer interface [polypeptide binding]; other site 498213010605 peripheral dimer interface [polypeptide binding]; other site 498213010606 L10 interface [polypeptide binding]; other site 498213010607 L11 interface [polypeptide binding]; other site 498213010608 putative EF-Tu interaction site [polypeptide binding]; other site 498213010609 putative EF-G interaction site [polypeptide binding]; other site 498213010610 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 498213010611 23S rRNA interface [nucleotide binding]; other site 498213010612 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 498213010613 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 498213010614 mRNA/rRNA interface [nucleotide binding]; other site 498213010615 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 498213010616 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 498213010617 23S rRNA interface [nucleotide binding]; other site 498213010618 L7/L12 interface [polypeptide binding]; other site 498213010619 putative thiostrepton binding site; other site 498213010620 L25 interface [polypeptide binding]; other site 498213010621 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 498213010622 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 498213010623 putative homodimer interface [polypeptide binding]; other site 498213010624 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 498213010625 heterodimer interface [polypeptide binding]; other site 498213010626 homodimer interface [polypeptide binding]; other site 498213010627 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 498213010628 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 498213010629 elongation factor Tu; Reviewed; Region: PRK00049 498213010630 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 498213010631 G1 box; other site 498213010632 GEF interaction site [polypeptide binding]; other site 498213010633 GTP/Mg2+ binding site [chemical binding]; other site 498213010634 Switch I region; other site 498213010635 G2 box; other site 498213010636 G3 box; other site 498213010637 Switch II region; other site 498213010638 G4 box; other site 498213010639 G5 box; other site 498213010640 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 498213010641 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 498213010642 Antibiotic Binding Site [chemical binding]; other site 498213010643 RNA polymerase factor sigma-70; Validated; Region: PRK08295 498213010644 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498213010645 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 498213010646 YacP-like NYN domain; Region: NYN_YacP; pfam05991 498213010647 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 498213010648 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 498213010649 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 498213010650 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 498213010651 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 498213010652 dimerization interface [polypeptide binding]; other site 498213010653 active site 498213010654 metal binding site [ion binding]; metal-binding site 498213010655 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 498213010656 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 498213010657 active site 498213010658 HIGH motif; other site 498213010659 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 498213010660 KMSKS motif; other site 498213010661 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 498213010662 tRNA binding surface [nucleotide binding]; other site 498213010663 anticodon binding site; other site 498213010664 threonine dehydratase; Provisional; Region: PRK08198 498213010665 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 498213010666 tetramer interface [polypeptide binding]; other site 498213010667 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498213010668 catalytic residue [active] 498213010669 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 498213010670 prolyl-tRNA synthetase; Provisional; Region: PRK09194 498213010671 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 498213010672 motif 1; other site 498213010673 dimer interface [polypeptide binding]; other site 498213010674 active site 498213010675 motif 2; other site 498213010676 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 498213010677 putative deacylase active site [active] 498213010678 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 498213010679 anticodon binding site; other site 498213010680 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 498213010681 substrate binding site; other site 498213010682 dimer interface; other site 498213010683 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 498213010684 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 498213010685 putative active site [active] 498213010686 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 498213010687 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 498213010688 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 498213010689 DNA repair protein RadA; Provisional; Region: PRK11823 498213010690 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 498213010691 Walker A motif/ATP binding site; other site 498213010692 ATP binding site [chemical binding]; other site 498213010693 Walker B motif; other site 498213010694 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 498213010695 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 498213010696 Clp amino terminal domain; Region: Clp_N; pfam02861 498213010697 Clp amino terminal domain; Region: Clp_N; pfam02861 498213010698 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 498213010699 Walker A motif; other site 498213010700 ATP binding site [chemical binding]; other site 498213010701 Walker B motif; other site 498213010702 arginine finger; other site 498213010703 UvrB/uvrC motif; Region: UVR; pfam02151 498213010704 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 498213010705 Walker A motif; other site 498213010706 ATP binding site [chemical binding]; other site 498213010707 Walker B motif; other site 498213010708 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 498213010709 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 498213010710 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 498213010711 ADP binding site [chemical binding]; other site 498213010712 phosphagen binding site; other site 498213010713 substrate specificity loop; other site 498213010714 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 498213010715 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 498213010716 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 498213010717 elongation factor G; Reviewed; Region: PRK12740 498213010718 G1 box; other site 498213010719 putative GEF interaction site [polypeptide binding]; other site 498213010720 GTP/Mg2+ binding site [chemical binding]; other site 498213010721 Switch I region; other site 498213010722 G2 box; other site 498213010723 G3 box; other site 498213010724 Switch II region; other site 498213010725 G4 box; other site 498213010726 G5 box; other site 498213010727 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 498213010728 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 498213010729 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 498213010730 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01710 498213010731 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 498213010732 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 498213010733 Quinolinate phosphoribosyl transferase, C-terminal domain; Region: QRPTase_C; pfam01729 498213010734 glycyl-tRNA synthetase; Provisional; Region: PRK04173 498213010735 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 498213010736 motif 1; other site 498213010737 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 498213010738 active site 498213010739 motif 2; other site 498213010740 motif 3; other site 498213010741 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 498213010742 anticodon binding site; other site 498213010743 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 498213010744 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 498213010745 dimer interface [polypeptide binding]; other site 498213010746 putative anticodon binding site; other site 498213010747 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 498213010748 motif 1; other site 498213010749 active site 498213010750 motif 2; other site 498213010751 motif 3; other site 498213010752 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 498213010753 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 498213010754 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 498213010755 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 498213010756 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 498213010757 FMN binding site [chemical binding]; other site 498213010758 active site 498213010759 catalytic residues [active] 498213010760 substrate binding site [chemical binding]; other site 498213010761 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 498213010762 nucleotide binding site [chemical binding]; other site 498213010763 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 498213010764 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 498213010765 Potassium binding sites [ion binding]; other site 498213010766 Cesium cation binding sites [ion binding]; other site 498213010767 FtsH Extracellular; Region: FtsH_ext; pfam06480 498213010768 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 498213010769 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 498213010770 Walker A motif; other site 498213010771 ATP binding site [chemical binding]; other site 498213010772 Walker B motif; other site 498213010773 arginine finger; other site 498213010774 Peptidase family M41; Region: Peptidase_M41; pfam01434 498213010775 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 498213010776 active site 498213010777 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 498213010778 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 498213010779 Ligand Binding Site [chemical binding]; other site 498213010780 TilS substrate C-terminal domain; Region: TilS_C; smart00977 498213010781 stage II sporulation protein E; Region: spore_II_E; TIGR02865 498213010782 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 498213010783 hypothetical protein; Provisional; Region: PRK05807 498213010784 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 498213010785 RNA binding site [nucleotide binding]; other site 498213010786 Septum formation initiator; Region: DivIC; pfam04977 498213010787 spore cortex biosynthesis protein YabQ; Region: spore_yabQ; TIGR02893 498213010788 sporulation protein YabP; Region: spore_yabP; TIGR02892 498213010789 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 498213010790 RNA binding surface [nucleotide binding]; other site 498213010791 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 498213010792 IHF dimer interface [polypeptide binding]; other site 498213010793 IHF - DNA interface [nucleotide binding]; other site 498213010794 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 498213010795 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 498213010796 putative SAM binding site [chemical binding]; other site 498213010797 putative homodimer interface [polypeptide binding]; other site 498213010798 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 498213010799 homodimer interface [polypeptide binding]; other site 498213010800 metal binding site [ion binding]; metal-binding site 498213010801 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 498213010802 homodimer interface [polypeptide binding]; other site 498213010803 active site 498213010804 putative chemical substrate binding site [chemical binding]; other site 498213010805 metal binding site [ion binding]; metal-binding site 498213010806 stage V sporulation protein B; Region: spore_V_B; TIGR02900 498213010807 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 498213010808 stage V sporulation protein T; Region: spore_V_T; TIGR02851 498213010809 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 498213010810 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 498213010811 SurA N-terminal domain; Region: SurA_N_3; cl07813 498213010812 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 498213010813 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 498213010814 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 498213010815 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 498213010816 ATP binding site [chemical binding]; other site 498213010817 putative Mg++ binding site [ion binding]; other site 498213010818 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 498213010819 nucleotide binding region [chemical binding]; other site 498213010820 ATP-binding site [chemical binding]; other site 498213010821 TRCF domain; Region: TRCF; pfam03461 498213010822 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 498213010823 putative active site [active] 498213010824 catalytic residue [active] 498213010825 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 498213010826 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 498213010827 protein binding site [polypeptide binding]; other site 498213010828 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498213010829 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 498213010830 dimerization interface [polypeptide binding]; other site 498213010831 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 498213010832 dimer interface [polypeptide binding]; other site 498213010833 phosphorylation site [posttranslational modification] 498213010834 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 498213010835 ATP binding site [chemical binding]; other site 498213010836 Mg2+ binding site [ion binding]; other site 498213010837 G-X-G motif; other site 498213010838 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498213010839 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 498213010840 active site 498213010841 phosphorylation site [posttranslational modification] 498213010842 intermolecular recognition site; other site 498213010843 dimerization interface [polypeptide binding]; other site 498213010844 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 498213010845 DNA binding site [nucleotide binding] 498213010846 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 498213010847 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 498213010848 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 498213010849 active site 498213010850 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 498213010851 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 498213010852 Substrate binding site; other site 498213010853 Mg++ binding site; other site 498213010854 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 498213010855 active site 498213010856 substrate binding site [chemical binding]; other site 498213010857 CoA binding site [chemical binding]; other site 498213010858 regulatory protein SpoVG; Reviewed; Region: PRK13259 498213010859 pur operon repressor; Provisional; Region: PRK09213 498213010860 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 498213010861 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 498213010862 active site 498213010863 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 498213010864 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 498213010865 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 498213010866 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 498213010867 Iron only hydrogenase large subunit, C-terminal domain [General function prediction only]; Region: COG4624 498213010868 4Fe-4S binding domain; Region: Fer4; pfam00037 498213010869 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 498213010870 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 498213010871 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 498213010872 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 498213010873 motif II; other site 498213010874 2-phosphosulfolactate phosphatase; Provisional; Region: PRK00886 498213010875 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 498213010876 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 498213010877 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 498213010878 FeS/SAM binding site; other site 498213010879 Uncharacterized membrane protein [Function unknown]; Region: COG3949 498213010880 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 498213010881 4Fe-4S single cluster domain; Region: Fer4_14; pfam13394 498213010882 FeS/SAM binding site; other site 498213010883 Heme NO binding; Region: HNOB; pfam07700 498213010884 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498213010885 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498213010886 dimer interface [polypeptide binding]; other site 498213010887 putative CheW interface [polypeptide binding]; other site 498213010888 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 498213010889 non-specific DNA binding site [nucleotide binding]; other site 498213010890 salt bridge; other site 498213010891 sequence-specific DNA binding site [nucleotide binding]; other site 498213010892 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 498213010893 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 498213010894 active site 498213010895 glutamate racemase; Provisional; Region: PRK00865 498213010896 glutamine synthetase, type I; Region: GlnA; TIGR00653 498213010897 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 498213010898 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 498213010899 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 498213010900 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 498213010901 hinge; other site 498213010902 active site 498213010903 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 498213010904 Sporulation and spore germination; Region: Germane; pfam10646 498213010905 hypothetical protein; Provisional; Region: PRK05590 498213010906 SEC-C motif; Region: SEC-C; pfam02810 498213010907 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 498213010908 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 498213010909 Major Facilitator Superfamily; Region: MFS_1; pfam07690 498213010910 putative substrate translocation pore; other site 498213010911 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 498213010912 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 498213010913 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 498213010914 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 498213010915 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213010916 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 498213010917 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 498213010918 methionine aminopeptidase; Provisional; Region: PRK12318 498213010919 SEC-C motif; Region: SEC-C; pfam02810 498213010920 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 498213010921 active site 498213010922 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 498213010923 putative FMN binding site [chemical binding]; other site 498213010924 glycine radical enzyme, YjjI family; Region: glycyl_YjjI; TIGR04040 498213010925 Pyruvate formate lyase; Region: PFL; pfam02901 498213010926 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 498213010927 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 498213010928 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 498213010929 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 498213010930 FeS/SAM binding site; other site 498213010931 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 498213010932 VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal...; Region: VHS_ENTH_ANTH; cl02544 498213010933 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 498213010934 FeS/SAM binding site; other site 498213010935 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 498213010936 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 498213010937 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 498213010938 G1 box; other site 498213010939 GTP/Mg2+ binding site [chemical binding]; other site 498213010940 Switch I region; other site 498213010941 G2 box; other site 498213010942 Switch II region; other site 498213010943 G3 box; other site 498213010944 G4 box; other site 498213010945 G5 box; other site 498213010946 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 498213010947 Na binding site [ion binding]; other site 498213010948 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 498213010949 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 498213010950 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 498213010951 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 498213010952 active site 498213010953 PHP-associated; Region: PHP_C; pfam13263 498213010954 dUTPase; Region: dUTPase_2; pfam08761 498213010955 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 498213010956 active site 498213010957 homodimer interface [polypeptide binding]; other site 498213010958 metal binding site [ion binding]; metal-binding site 498213010959 Protein of unknown function, DUF606; Region: DUF606; pfam04657 498213010960 Transcriptional regulator [Transcription]; Region: LysR; COG0583 498213010961 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 498213010962 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 498213010963 dimerization interface [polypeptide binding]; other site 498213010964 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 498213010965 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 498213010966 active site 498213010967 catalytic residues [active] 498213010968 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 498213010969 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 498213010970 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 498213010971 putative dimerization interface [polypeptide binding]; other site 498213010972 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 498213010973 Phosphoglycerate Dehydrogenase, 2-hydroxyacid dehydrogenase family; Region: PGDH_1; cd12155 498213010974 putative ligand binding site [chemical binding]; other site 498213010975 NAD binding site [chemical binding]; other site 498213010976 catalytic site [active] 498213010977 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 498213010978 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 498213010979 Elongation factor 1 gamma, conserved domain; Region: EF1G; pfam00647 498213010980 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 498213010981 biotin carboxylase; Validated; Region: PRK05586 498213010982 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 498213010983 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 498213010984 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 498213010985 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 498213010986 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 498213010987 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 498213010988 carboxyltransferase (CT) interaction site; other site 498213010989 biotinylation site [posttranslational modification]; other site 498213010990 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 498213010991 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 498213010992 dimer interface [polypeptide binding]; other site 498213010993 active site 498213010994 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 498213010995 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 498213010996 NAD(P) binding site [chemical binding]; other site 498213010997 homotetramer interface [polypeptide binding]; other site 498213010998 homodimer interface [polypeptide binding]; other site 498213010999 active site 498213011000 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 498213011001 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 498213011002 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 498213011003 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 498213011004 FMN binding site [chemical binding]; other site 498213011005 substrate binding site [chemical binding]; other site 498213011006 putative catalytic residue [active] 498213011007 acyl carrier protein; Provisional; Region: acpP; PRK00982 498213011008 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 498213011009 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 498213011010 dimer interface [polypeptide binding]; other site 498213011011 active site 498213011012 CoA binding pocket [chemical binding]; other site 498213011013 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 498213011014 MarR family; Region: MarR_2; pfam12802 498213011015 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 498213011016 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 498213011017 FMN binding site [chemical binding]; other site 498213011018 substrate binding site [chemical binding]; other site 498213011019 putative catalytic residue [active] 498213011020 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 498213011021 Peptidase family M23; Region: Peptidase_M23; pfam01551 498213011022 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 498213011023 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 498213011024 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 498213011025 DNA replication protein DnaC; Validated; Region: PRK06835 498213011026 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 498213011027 Walker A motif; other site 498213011028 ATP binding site [chemical binding]; other site 498213011029 PEP synthetase regulatory protein; Provisional; Region: PRK05339 498213011030 CoA binding domain; Region: CoA_binding_2; pfam13380 498213011031 flavoprotein, HI0933 family; Region: TIGR00275 498213011032 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 498213011033 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 498213011034 active site 498213011035 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 498213011036 active site 498213011037 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 498213011038 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 498213011039 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 498213011040 GDP-binding site [chemical binding]; other site 498213011041 ACT binding site; other site 498213011042 IMP binding site; other site 498213011043 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 498213011044 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 498213011045 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 498213011046 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 498213011047 active site 498213011048 substrate binding site [chemical binding]; other site 498213011049 metal binding site [ion binding]; metal-binding site 498213011050 replicative DNA helicase; Provisional; Region: PRK05595 498213011051 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 498213011052 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 498213011053 Walker A motif; other site 498213011054 ATP binding site [chemical binding]; other site 498213011055 Walker B motif; other site 498213011056 DNA binding loops [nucleotide binding] 498213011057 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 498213011058 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 498213011059 Walker A motif; other site 498213011060 ATP binding site [chemical binding]; other site 498213011061 Walker B motif; other site 498213011062 arginine finger; other site 498213011063 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 498213011064 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 498213011065 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 498213011066 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 498213011067 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 498213011068 DHH family; Region: DHH; pfam01368 498213011069 DHHA1 domain; Region: DHHA1; pfam02272 498213011070 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 498213011071 MazG-like family; Region: MazG-like; pfam12643 498213011072 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 498213011073 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 498213011074 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 498213011075 dimer interface [polypeptide binding]; other site 498213011076 ssDNA binding site [nucleotide binding]; other site 498213011077 tetramer (dimer of dimers) interface [polypeptide binding]; other site 498213011078 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 498213011079 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 498213011080 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 498213011081 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 498213011082 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 498213011083 Mechanosensitive ion channel; Region: MS_channel; pfam00924 498213011084 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 498213011085 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 498213011086 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 498213011087 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 498213011088 catalytic residue [active] 498213011089 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 498213011090 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 498213011091 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 498213011092 ParB-like nuclease domain; Region: ParB; smart00470 498213011093 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 498213011094 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 498213011095 P-loop; other site 498213011096 Magnesium ion binding site [ion binding]; other site 498213011097 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 498213011098 Magnesium ion binding site [ion binding]; other site 498213011099 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 498213011100 ParB-like nuclease domain; Region: ParBc; pfam02195 498213011101 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 498213011102 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 498213011103 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 498213011104 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 498213011105 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 498213011106 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 498213011107 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 498213011108 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 498213011109 trmE is a tRNA modification GTPase; Region: trmE; cd04164 498213011110 G1 box; other site 498213011111 GTP/Mg2+ binding site [chemical binding]; other site 498213011112 Switch I region; other site 498213011113 G2 box; other site 498213011114 Switch II region; other site 498213011115 G3 box; other site 498213011116 G4 box; other site 498213011117 G5 box; other site 498213011118 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 498213011119 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 498213011120 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 498213011121 G-X-X-G motif; other site 498213011122 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 498213011123 RxxxH motif; other site 498213011124 putative inner membrane protein translocase component YidC; Provisional; Region: PRK00145 498213011125 Haemolytic domain; Region: Haemolytic; pfam01809 498213011126 ribonuclease P; Reviewed; Region: rnpA; PRK00499 498213011127 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399