-- dump date 20140619_225805 -- class Genbank::misc_feature -- table misc_feature_note -- id note 349520000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 349520000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 349520000003 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 349520000004 Walker A motif; other site 349520000005 ATP binding site [chemical binding]; other site 349520000006 Walker B motif; other site 349520000007 arginine finger; other site 349520000008 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 349520000009 DnaA box-binding interface [nucleotide binding]; other site 349520000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 349520000011 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 349520000012 putative DNA binding surface [nucleotide binding]; other site 349520000013 dimer interface [polypeptide binding]; other site 349520000014 beta-clamp/clamp loader binding surface; other site 349520000015 beta-clamp/translesion DNA polymerase binding surface; other site 349520000016 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 349520000017 RNA binding surface [nucleotide binding]; other site 349520000018 recombination protein F; Reviewed; Region: recF; PRK00064 349520000019 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 349520000020 Walker A/P-loop; other site 349520000021 ATP binding site [chemical binding]; other site 349520000022 Q-loop/lid; other site 349520000023 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520000024 ABC transporter signature motif; other site 349520000025 Walker B; other site 349520000026 D-loop; other site 349520000027 H-loop/switch region; other site 349520000028 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 349520000029 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 349520000030 Mg2+ binding site [ion binding]; other site 349520000031 G-X-G motif; other site 349520000032 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 349520000033 anchoring element; other site 349520000034 dimer interface [polypeptide binding]; other site 349520000035 ATP binding site [chemical binding]; other site 349520000036 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 349520000037 active site 349520000038 putative metal-binding site [ion binding]; other site 349520000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 349520000040 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 349520000041 DNA gyrase subunit A; Validated; Region: PRK05560 349520000042 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 349520000043 CAP-like domain; other site 349520000044 active site 349520000045 primary dimer interface [polypeptide binding]; other site 349520000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349520000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349520000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349520000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349520000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349520000051 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349520000052 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 349520000053 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 349520000054 Zn2+ binding site [ion binding]; other site 349520000055 Mg2+ binding site [ion binding]; other site 349520000056 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 349520000057 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 349520000058 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 349520000059 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349520000060 catalytic residue [active] 349520000061 thymidylate kinase; Validated; Region: tmk; PRK00698 349520000062 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 349520000063 TMP-binding site; other site 349520000064 ATP-binding site [chemical binding]; other site 349520000065 Protein of unknown function (DUF970); Region: DUF970; pfam06153 349520000066 Protein of unknown function (DUF327); Region: DUF327; pfam03885 349520000067 DNA polymerase III subunit delta'; Validated; Region: PRK08058 349520000068 DNA polymerase III subunit delta'; Validated; Region: PRK08485 349520000069 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 349520000070 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 349520000071 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 349520000072 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 349520000073 S-adenosylmethionine binding site [chemical binding]; other site 349520000074 Predicted methyltransferases [General function prediction only]; Region: COG0313 349520000075 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 349520000076 putative SAM binding site [chemical binding]; other site 349520000077 putative homodimer interface [polypeptide binding]; other site 349520000078 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 349520000079 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 349520000080 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 349520000081 Zn2+ binding site [ion binding]; other site 349520000082 Mg2+ binding site [ion binding]; other site 349520000083 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 349520000084 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 349520000085 active site 349520000086 Domain of unknown function (DUF348); Region: DUF348; pfam03990 349520000087 Domain of unknown function (DUF348); Region: DUF348; pfam03990 349520000088 G5 domain; Region: G5; pfam07501 349520000089 3D domain; Region: 3D; cl01439 349520000090 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 349520000091 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 349520000092 putative active site [active] 349520000093 putative metal binding site [ion binding]; other site 349520000094 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 349520000095 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 349520000096 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 349520000097 S-adenosylmethionine binding site [chemical binding]; other site 349520000098 YabG peptidase U57; Region: Peptidase_U57; cl05250 349520000099 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 349520000100 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 349520000101 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 349520000102 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 349520000103 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 349520000104 pur operon repressor; Provisional; Region: PRK09213 349520000105 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 349520000106 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349520000107 active site 349520000108 regulatory protein SpoVG; Reviewed; Region: PRK13259 349520000109 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 349520000110 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 349520000111 Substrate binding site; other site 349520000112 Mg++ binding site; other site 349520000113 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 349520000114 active site 349520000115 substrate binding site [chemical binding]; other site 349520000116 CoA binding site [chemical binding]; other site 349520000117 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 349520000118 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 349520000119 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349520000120 active site 349520000121 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 349520000122 putative active site [active] 349520000123 catalytic residue [active] 349520000124 Protein of unknown function (DUF2757); Region: DUF2757; pfam10955 349520000125 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 349520000126 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 349520000127 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 349520000128 ATP binding site [chemical binding]; other site 349520000129 putative Mg++ binding site [ion binding]; other site 349520000130 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 349520000131 nucleotide binding region [chemical binding]; other site 349520000132 ATP-binding site [chemical binding]; other site 349520000133 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 349520000134 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 349520000135 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 349520000136 stage V sporulation protein T; Region: spore_V_T; TIGR02851 349520000137 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 349520000138 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 349520000139 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 349520000140 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 349520000141 putative SAM binding site [chemical binding]; other site 349520000142 putative homodimer interface [polypeptide binding]; other site 349520000143 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 349520000144 homodimer interface [polypeptide binding]; other site 349520000145 metal binding site [ion binding]; metal-binding site 349520000146 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 349520000147 homodimer interface [polypeptide binding]; other site 349520000148 active site 349520000149 putative chemical substrate binding site [chemical binding]; other site 349520000150 metal binding site [ion binding]; metal-binding site 349520000151 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 349520000152 IHF dimer interface [polypeptide binding]; other site 349520000153 IHF - DNA interface [nucleotide binding]; other site 349520000154 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 349520000155 RNA binding surface [nucleotide binding]; other site 349520000156 YabP family; Region: YabP; cl06766 349520000157 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; cl09801 349520000158 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 349520000159 Septum formation initiator; Region: DivIC; cl17659 349520000160 hypothetical protein; Provisional; Region: PRK08582 349520000161 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 349520000162 RNA binding site [nucleotide binding]; other site 349520000163 stage II sporulation protein E; Region: spore_II_E; TIGR02865 349520000164 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 349520000165 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 349520000166 metal ion-dependent adhesion site (MIDAS); other site 349520000167 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 349520000168 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349520000169 active site 349520000170 ATP binding site [chemical binding]; other site 349520000171 substrate binding site [chemical binding]; other site 349520000172 activation loop (A-loop); other site 349520000173 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 349520000174 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 349520000175 Ligand Binding Site [chemical binding]; other site 349520000176 TilS substrate C-terminal domain; Region: TilS_C; smart00977 349520000177 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349520000178 active site 349520000179 FtsH Extracellular; Region: FtsH_ext; pfam06480 349520000180 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 349520000181 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 349520000182 Walker A motif; other site 349520000183 ATP binding site [chemical binding]; other site 349520000184 Walker B motif; other site 349520000185 arginine finger; other site 349520000186 Peptidase family M41; Region: Peptidase_M41; pfam01434 349520000187 L-aspartate oxidase; Provisional; Region: PRK06175 349520000188 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 349520000189 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 349520000190 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 349520000191 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 349520000192 dimerization interface [polypeptide binding]; other site 349520000193 active site 349520000194 pantothenate kinase; Reviewed; Region: PRK13318 349520000195 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 349520000196 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 349520000197 dimerization interface [polypeptide binding]; other site 349520000198 domain crossover interface; other site 349520000199 redox-dependent activation switch; other site 349520000200 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 349520000201 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 349520000202 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 349520000203 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 349520000204 dimer interface [polypeptide binding]; other site 349520000205 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520000206 catalytic residue [active] 349520000207 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 349520000208 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 349520000209 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 349520000210 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 349520000211 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 349520000212 glutamine binding [chemical binding]; other site 349520000213 catalytic triad [active] 349520000214 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 349520000215 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 349520000216 homodimer interface [polypeptide binding]; other site 349520000217 substrate-cofactor binding pocket; other site 349520000218 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520000219 catalytic residue [active] 349520000220 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 349520000221 dihydropteroate synthase; Region: DHPS; TIGR01496 349520000222 substrate binding pocket [chemical binding]; other site 349520000223 dimer interface [polypeptide binding]; other site 349520000224 inhibitor binding site; inhibition site 349520000225 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 349520000226 homooctamer interface [polypeptide binding]; other site 349520000227 active site 349520000228 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 349520000229 catalytic center binding site [active] 349520000230 ATP binding site [chemical binding]; other site 349520000231 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 349520000232 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 349520000233 non-specific DNA binding site [nucleotide binding]; other site 349520000234 salt bridge; other site 349520000235 sequence-specific DNA binding site [nucleotide binding]; other site 349520000236 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 349520000237 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 349520000238 FMN binding site [chemical binding]; other site 349520000239 active site 349520000240 catalytic residues [active] 349520000241 substrate binding site [chemical binding]; other site 349520000242 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 349520000243 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 349520000244 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 349520000245 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 349520000246 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 349520000247 dimer interface [polypeptide binding]; other site 349520000248 putative anticodon binding site; other site 349520000249 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 349520000250 motif 1; other site 349520000251 active site 349520000252 motif 2; other site 349520000253 motif 3; other site 349520000254 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 349520000255 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 349520000256 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 349520000257 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 349520000258 NAD binding site [chemical binding]; other site 349520000259 homotetramer interface [polypeptide binding]; other site 349520000260 homodimer interface [polypeptide binding]; other site 349520000261 substrate binding site [chemical binding]; other site 349520000262 active site 349520000263 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 349520000264 AMP-binding enzyme; Region: AMP-binding; pfam00501 349520000265 Adenylate forming domain, Class I; Region: AFD_class_I; cd04433 349520000266 acyl-activating enzyme (AAE) consensus motif; other site 349520000267 acyl-activating enzyme (AAE) consensus motif; other site 349520000268 AMP binding site [chemical binding]; other site 349520000269 active site 349520000270 CoA binding site [chemical binding]; other site 349520000271 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 349520000272 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 349520000273 catalytic residues [active] 349520000274 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 349520000275 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 349520000276 PYR/PP interface [polypeptide binding]; other site 349520000277 dimer interface [polypeptide binding]; other site 349520000278 TPP binding site [chemical binding]; other site 349520000279 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 349520000280 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 349520000281 TPP-binding site [chemical binding]; other site 349520000282 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 349520000283 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 349520000284 dimer interface [polypeptide binding]; other site 349520000285 active site 349520000286 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 349520000287 Condensation domain; Region: Condensation; pfam00668 349520000288 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520000289 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520000290 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520000291 acyl-activating enzyme (AAE) consensus motif; other site 349520000292 AMP binding site [chemical binding]; other site 349520000293 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520000294 peptide synthase; Provisional; Region: PRK12316 349520000295 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520000296 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 349520000297 acyl-activating enzyme (AAE) consensus motif; other site 349520000298 AMP binding site [chemical binding]; other site 349520000299 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520000300 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 349520000301 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520000302 acyl-activating enzyme (AAE) consensus motif; other site 349520000303 AMP binding site [chemical binding]; other site 349520000304 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520000305 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520000306 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520000307 acyl-activating enzyme (AAE) consensus motif; other site 349520000308 AMP binding site [chemical binding]; other site 349520000309 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520000310 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 349520000311 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520000312 acyl-activating enzyme (AAE) consensus motif; other site 349520000313 AMP binding site [chemical binding]; other site 349520000314 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520000315 Condensation domain; Region: Condensation; pfam00668 349520000316 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 349520000317 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 349520000318 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520000319 acyl-activating enzyme (AAE) consensus motif; other site 349520000320 AMP binding site [chemical binding]; other site 349520000321 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520000322 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 349520000323 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 349520000324 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 349520000325 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 349520000326 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 349520000327 active site 349520000328 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 349520000329 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 349520000330 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 349520000331 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 349520000332 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 349520000333 active site 349520000334 multimer interface [polypeptide binding]; other site 349520000335 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 349520000336 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13152 349520000337 predicted active site [active] 349520000338 catalytic triad [active] 349520000339 seryl-tRNA synthetase; Provisional; Region: PRK05431 349520000340 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 349520000341 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 349520000342 dimer interface [polypeptide binding]; other site 349520000343 active site 349520000344 motif 1; other site 349520000345 motif 2; other site 349520000346 motif 3; other site 349520000347 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 349520000348 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 349520000349 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 349520000350 nucleoside/Zn binding site; other site 349520000351 dimer interface [polypeptide binding]; other site 349520000352 catalytic motif [active] 349520000353 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 349520000354 dimerization interface [polypeptide binding]; other site 349520000355 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 349520000356 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 349520000357 putative active site [active] 349520000358 heme pocket [chemical binding]; other site 349520000359 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 349520000360 dimer interface [polypeptide binding]; other site 349520000361 phosphorylation site [posttranslational modification] 349520000362 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 349520000363 ATP binding site [chemical binding]; other site 349520000364 Mg2+ binding site [ion binding]; other site 349520000365 G-X-G motif; other site 349520000366 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 349520000367 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 349520000368 RNA binding surface [nucleotide binding]; other site 349520000369 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 349520000370 probable active site [active] 349520000371 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 349520000372 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 349520000373 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349520000374 ligand binding site [chemical binding]; other site 349520000375 flagellar motor protein MotA; Validated; Region: PRK08124 349520000376 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 349520000377 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 349520000378 aromatic arch; other site 349520000379 DCoH dimer interaction site [polypeptide binding]; other site 349520000380 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 349520000381 DCoH tetramer interaction site [polypeptide binding]; other site 349520000382 substrate binding site [chemical binding]; other site 349520000383 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 349520000384 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 349520000385 NlpC/P60 family; Region: NLPC_P60; pfam00877 349520000386 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 349520000387 Zn binding site [ion binding]; other site 349520000388 YwhD family; Region: YwhD; pfam08741 349520000389 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 349520000390 HPr interaction site; other site 349520000391 glycerol kinase (GK) interaction site [polypeptide binding]; other site 349520000392 active site 349520000393 phosphorylation site [posttranslational modification] 349520000394 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 349520000395 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 349520000396 catalytic core [active] 349520000397 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 349520000398 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 349520000399 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349520000400 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 349520000401 dimer interface [polypeptide binding]; other site 349520000402 Transglycosylase; Region: Transgly; pfam00912 349520000403 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 349520000404 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 349520000405 spermidine synthase; Provisional; Region: PRK00811 349520000406 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 349520000407 H+ Antiporter protein; Region: 2A0121; TIGR00900 349520000408 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 349520000409 putative substrate translocation pore; other site 349520000410 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349520000411 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520000412 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 349520000413 Walker A/P-loop; other site 349520000414 ATP binding site [chemical binding]; other site 349520000415 Q-loop/lid; other site 349520000416 ABC transporter signature motif; other site 349520000417 Walker B; other site 349520000418 D-loop; other site 349520000419 H-loop/switch region; other site 349520000420 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349520000421 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520000422 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520000423 Walker A/P-loop; other site 349520000424 ATP binding site [chemical binding]; other site 349520000425 Q-loop/lid; other site 349520000426 ABC transporter signature motif; other site 349520000427 Walker B; other site 349520000428 D-loop; other site 349520000429 H-loop/switch region; other site 349520000430 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520000431 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520000432 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 349520000433 dimerization interface [polypeptide binding]; other site 349520000434 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 349520000435 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 349520000436 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 349520000437 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 349520000438 active site 349520000439 HIGH motif; other site 349520000440 KMSK motif region; other site 349520000441 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 349520000442 tRNA binding surface [nucleotide binding]; other site 349520000443 anticodon binding site; other site 349520000444 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 349520000445 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520000446 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 349520000447 putative dimerization interface [polypeptide binding]; other site 349520000448 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349520000449 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520000450 Walker A/P-loop; other site 349520000451 ATP binding site [chemical binding]; other site 349520000452 Q-loop/lid; other site 349520000453 ABC transporter signature motif; other site 349520000454 Walker B; other site 349520000455 D-loop; other site 349520000456 H-loop/switch region; other site 349520000457 TOBE domain; Region: TOBE_2; pfam08402 349520000458 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 349520000459 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 349520000460 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 349520000461 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520000462 dimer interface [polypeptide binding]; other site 349520000463 conserved gate region; other site 349520000464 putative PBP binding loops; other site 349520000465 ABC-ATPase subunit interface; other site 349520000466 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520000467 dimer interface [polypeptide binding]; other site 349520000468 conserved gate region; other site 349520000469 putative PBP binding loops; other site 349520000470 ABC-ATPase subunit interface; other site 349520000471 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 349520000472 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 349520000473 Beta-Casp domain; Region: Beta-Casp; smart01027 349520000474 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 349520000475 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 349520000476 active site 349520000477 catalytic residues [active] 349520000478 DNA-directed RNA polymerase subunit delta; Reviewed; Region: PRK02363 349520000479 CTP synthetase; Validated; Region: pyrG; PRK05380 349520000480 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 349520000481 Catalytic site [active] 349520000482 active site 349520000483 UTP binding site [chemical binding]; other site 349520000484 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 349520000485 active site 349520000486 putative oxyanion hole; other site 349520000487 catalytic triad [active] 349520000488 Response regulator receiver domain; Region: Response_reg; pfam00072 349520000489 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 349520000490 active site 349520000491 phosphorylation site [posttranslational modification] 349520000492 intermolecular recognition site; other site 349520000493 dimerization interface [polypeptide binding]; other site 349520000494 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 349520000495 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 349520000496 intersubunit interface [polypeptide binding]; other site 349520000497 active site 349520000498 zinc binding site [ion binding]; other site 349520000499 Na+ binding site [ion binding]; other site 349520000500 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 349520000501 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 349520000502 hinge; other site 349520000503 active site 349520000504 transcription termination factor Rho; Provisional; Region: rho; PRK09376 349520000505 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 349520000506 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 349520000507 RNA binding site [nucleotide binding]; other site 349520000508 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 349520000509 multimer interface [polypeptide binding]; other site 349520000510 Walker A motif; other site 349520000511 ATP binding site [chemical binding]; other site 349520000512 Walker B motif; other site 349520000513 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 349520000514 Radical SAM superfamily; Region: Radical_SAM; pfam04055 349520000515 FeS/SAM binding site; other site 349520000516 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 349520000517 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 349520000518 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 349520000519 Walker A motif; other site 349520000520 ATP binding site [chemical binding]; other site 349520000521 Walker B motif; other site 349520000522 arginine finger; other site 349520000523 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 349520000524 hypothetical protein; Validated; Region: PRK00153 349520000525 recombination protein RecR; Reviewed; Region: recR; PRK00076 349520000526 RecR protein; Region: RecR; pfam02132 349520000527 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 349520000528 putative active site [active] 349520000529 putative metal-binding site [ion binding]; other site 349520000530 tetramer interface [polypeptide binding]; other site 349520000531 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 349520000532 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 349520000533 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 349520000534 Walker A/P-loop; other site 349520000535 ATP binding site [chemical binding]; other site 349520000536 Q-loop/lid; other site 349520000537 ABC transporter signature motif; other site 349520000538 Walker B; other site 349520000539 D-loop; other site 349520000540 H-loop/switch region; other site 349520000541 TOBE domain; Region: TOBE; pfam03459 349520000542 HPr kinase/phosphorylase; Provisional; Region: PRK05428 349520000543 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 349520000544 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 349520000545 Hpr binding site; other site 349520000546 active site 349520000547 homohexamer subunit interaction site [polypeptide binding]; other site 349520000548 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 349520000549 pyrophosphatase PpaX; Provisional; Region: PRK13288 349520000550 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 349520000551 active site 349520000552 motif I; other site 349520000553 motif II; other site 349520000554 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 349520000555 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 349520000556 trimer interface [polypeptide binding]; other site 349520000557 active site 349520000558 substrate binding site [chemical binding]; other site 349520000559 CoA binding site [chemical binding]; other site 349520000560 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349520000561 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 349520000562 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 349520000563 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 349520000564 Walker A/P-loop; other site 349520000565 ATP binding site [chemical binding]; other site 349520000566 Q-loop/lid; other site 349520000567 ABC transporter signature motif; other site 349520000568 Walker B; other site 349520000569 D-loop; other site 349520000570 H-loop/switch region; other site 349520000571 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 349520000572 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 349520000573 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 349520000574 dimer interface [polypeptide binding]; other site 349520000575 motif 1; other site 349520000576 active site 349520000577 motif 2; other site 349520000578 motif 3; other site 349520000579 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 349520000580 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 349520000581 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 349520000582 histidinol dehydrogenase; Region: hisD; TIGR00069 349520000583 NAD binding site [chemical binding]; other site 349520000584 dimerization interface [polypeptide binding]; other site 349520000585 product binding site; other site 349520000586 substrate binding site [chemical binding]; other site 349520000587 zinc binding site [ion binding]; other site 349520000588 catalytic residues [active] 349520000589 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 349520000590 putative active site pocket [active] 349520000591 4-fold oligomerization interface [polypeptide binding]; other site 349520000592 metal binding residues [ion binding]; metal-binding site 349520000593 3-fold/trimer interface [polypeptide binding]; other site 349520000594 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 349520000595 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 349520000596 putative active site [active] 349520000597 oxyanion strand; other site 349520000598 catalytic triad [active] 349520000599 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 349520000600 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 349520000601 catalytic residues [active] 349520000602 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 349520000603 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 349520000604 substrate binding site [chemical binding]; other site 349520000605 glutamase interaction surface [polypeptide binding]; other site 349520000606 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 349520000607 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 349520000608 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 349520000609 metal binding site [ion binding]; metal-binding site 349520000610 histidinol-phosphatase; Provisional; Region: PRK07328 349520000611 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 349520000612 active site 349520000613 dimer interface [polypeptide binding]; other site 349520000614 TPR repeat; Region: TPR_11; pfam13414 349520000615 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 349520000616 TPR motif; other site 349520000617 binding surface 349520000618 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 349520000619 TPR motif; other site 349520000620 binding surface 349520000621 HEAT repeats; Region: HEAT_2; pfam13646 349520000622 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 349520000623 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349520000624 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349520000625 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 349520000626 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 349520000627 nucleotide binding site [chemical binding]; other site 349520000628 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 349520000629 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 349520000630 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 349520000631 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 349520000632 phosphate binding site [ion binding]; other site 349520000633 putative substrate binding pocket [chemical binding]; other site 349520000634 dimer interface [polypeptide binding]; other site 349520000635 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 349520000636 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 349520000637 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 349520000638 dimerization domain swap beta strand [polypeptide binding]; other site 349520000639 regulatory protein interface [polypeptide binding]; other site 349520000640 active site 349520000641 regulatory phosphorylation site [posttranslational modification]; other site 349520000642 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 349520000643 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520000644 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 349520000645 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 349520000646 Clp protease; Region: CLP_protease; pfam00574 349520000647 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 349520000648 oligomer interface [polypeptide binding]; other site 349520000649 active site residues [active] 349520000650 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 349520000651 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 349520000652 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 349520000653 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 349520000654 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 349520000655 Phosphoglycerate kinase; Region: PGK; pfam00162 349520000656 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 349520000657 substrate binding site [chemical binding]; other site 349520000658 hinge regions; other site 349520000659 ADP binding site [chemical binding]; other site 349520000660 catalytic site [active] 349520000661 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 349520000662 triosephosphate isomerase; Provisional; Region: PRK14565 349520000663 substrate binding site [chemical binding]; other site 349520000664 dimer interface [polypeptide binding]; other site 349520000665 catalytic triad [active] 349520000666 phosphoglyceromutase; Provisional; Region: PRK05434 349520000667 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 349520000668 enolase; Provisional; Region: eno; PRK00077 349520000669 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 349520000670 dimer interface [polypeptide binding]; other site 349520000671 metal binding site [ion binding]; metal-binding site 349520000672 substrate binding pocket [chemical binding]; other site 349520000673 Preprotein translocase SecG subunit; Region: SecG; pfam03840 349520000674 ribonuclease R; Region: RNase_R; TIGR02063 349520000675 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 349520000676 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 349520000677 RNB domain; Region: RNB; pfam00773 349520000678 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 349520000679 RNA binding site [nucleotide binding]; other site 349520000680 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 349520000681 SmpB-tmRNA interface; other site 349520000682 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 349520000683 Predicted membrane protein [Function unknown]; Region: COG2259 349520000684 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 349520000685 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349520000686 Zn binding site [ion binding]; other site 349520000687 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 349520000688 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349520000689 Zn binding site [ion binding]; other site 349520000690 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 349520000691 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 349520000692 active site 349520000693 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 349520000694 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520000695 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 349520000696 DNA-binding site [nucleotide binding]; DNA binding site 349520000697 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 349520000698 putative phosphoketolase; Provisional; Region: PRK05261 349520000699 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 349520000700 TPP-binding site; other site 349520000701 XFP C-terminal domain; Region: XFP_C; pfam09363 349520000702 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 349520000703 active site 349520000704 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 349520000705 TFIIB zinc-binding; Region: TF_Zn_Ribbon; pfam08271 349520000706 Repair protein; Region: Repair_PSII; pfam04536 349520000707 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 349520000708 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 349520000709 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 349520000710 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 349520000711 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 349520000712 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 349520000713 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 349520000714 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520000715 Phytase; Region: Phytase; cl17685 349520000716 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520000717 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520000718 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 349520000719 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 349520000720 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 349520000721 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 349520000722 MATE family multidrug exporter; Provisional; Region: PRK10189 349520000723 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 349520000724 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 349520000725 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 349520000726 NAD(P) binding site [chemical binding]; other site 349520000727 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 349520000728 dimerization interface [polypeptide binding]; other site 349520000729 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520000730 RDD family; Region: RDD; pfam06271 349520000731 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 349520000732 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 349520000733 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 349520000734 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520000735 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520000736 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520000737 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 349520000738 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 349520000739 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 349520000740 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520000741 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520000742 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 349520000743 putative dimerization interface [polypeptide binding]; other site 349520000744 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 349520000745 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 349520000746 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 349520000747 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 349520000748 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 349520000749 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 349520000750 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 349520000751 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520000752 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520000753 dimer interface [polypeptide binding]; other site 349520000754 conserved gate region; other site 349520000755 putative PBP binding loops; other site 349520000756 ABC-ATPase subunit interface; other site 349520000757 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520000758 dimer interface [polypeptide binding]; other site 349520000759 conserved gate region; other site 349520000760 putative PBP binding loops; other site 349520000761 ABC-ATPase subunit interface; other site 349520000762 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520000763 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 349520000764 dimerization interface [polypeptide binding]; other site 349520000765 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 349520000766 Histidine kinase; Region: His_kinase; pfam06580 349520000767 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 349520000768 ATP binding site [chemical binding]; other site 349520000769 Mg2+ binding site [ion binding]; other site 349520000770 G-X-G motif; other site 349520000771 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 349520000772 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 349520000773 active site 349520000774 phosphorylation site [posttranslational modification] 349520000775 intermolecular recognition site; other site 349520000776 dimerization interface [polypeptide binding]; other site 349520000777 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520000778 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 349520000779 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 349520000780 ATP-binding site [chemical binding]; other site 349520000781 Sugar specificity; other site 349520000782 Pyrimidine base specificity; other site 349520000783 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 349520000784 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 349520000785 Pectate lyase; Region: Pec_lyase_C; cl01593 349520000786 SNF2 Helicase protein; Region: DUF3670; pfam12419 349520000787 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 349520000788 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 349520000789 ATP binding site [chemical binding]; other site 349520000790 putative Mg++ binding site [ion binding]; other site 349520000791 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 349520000792 nucleotide binding region [chemical binding]; other site 349520000793 ATP-binding site [chemical binding]; other site 349520000794 SWIM zinc finger; Region: SWIM; pfam04434 349520000795 Predicted esterase [General function prediction only]; Region: COG0400 349520000796 putative hydrolase; Provisional; Region: PRK11460 349520000797 beta-phosphoglucomutase; Region: bPGM; TIGR01990 349520000798 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 349520000799 motif II; other site 349520000800 maltose phosphorylase; Provisional; Region: PRK13807 349520000801 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 349520000802 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 349520000803 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 349520000804 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520000805 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520000806 DNA binding site [nucleotide binding] 349520000807 domain linker motif; other site 349520000808 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 349520000809 putative dimerization interface [polypeptide binding]; other site 349520000810 putative ligand binding site [chemical binding]; other site 349520000811 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 349520000812 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 349520000813 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 349520000814 active site turn [active] 349520000815 phosphorylation site [posttranslational modification] 349520000816 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 349520000817 putative catalytic site [active] 349520000818 putative metal binding site [ion binding]; other site 349520000819 putative phosphate binding site [ion binding]; other site 349520000820 DinB family; Region: DinB; cl17821 349520000821 DinB superfamily; Region: DinB_2; pfam12867 349520000822 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520000823 MarR family; Region: MarR; pfam01047 349520000824 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 349520000825 Response regulator receiver domain; Region: Response_reg; pfam00072 349520000826 active site 349520000827 phosphorylation site [posttranslational modification] 349520000828 intermolecular recognition site; other site 349520000829 dimerization interface [polypeptide binding]; other site 349520000830 YcbB domain; Region: YcbB; pfam08664 349520000831 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520000832 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 349520000833 ATP binding site [chemical binding]; other site 349520000834 Mg2+ binding site [ion binding]; other site 349520000835 G-X-G motif; other site 349520000836 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 349520000837 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 349520000838 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 349520000839 PAS fold; Region: PAS_3; pfam08447 349520000840 putative active site [active] 349520000841 heme pocket [chemical binding]; other site 349520000842 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 349520000843 PAS fold; Region: PAS_3; pfam08447 349520000844 putative active site [active] 349520000845 heme pocket [chemical binding]; other site 349520000846 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349520000847 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520000848 dimer interface [polypeptide binding]; other site 349520000849 putative CheW interface [polypeptide binding]; other site 349520000850 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 349520000851 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 349520000852 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 349520000853 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349520000854 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520000855 dimer interface [polypeptide binding]; other site 349520000856 conserved gate region; other site 349520000857 putative PBP binding loops; other site 349520000858 ABC-ATPase subunit interface; other site 349520000859 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 349520000860 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 349520000861 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520000862 dimer interface [polypeptide binding]; other site 349520000863 conserved gate region; other site 349520000864 putative PBP binding loops; other site 349520000865 ABC-ATPase subunit interface; other site 349520000866 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 349520000867 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349520000868 Walker A/P-loop; other site 349520000869 ATP binding site [chemical binding]; other site 349520000870 Q-loop/lid; other site 349520000871 ABC transporter signature motif; other site 349520000872 Walker B; other site 349520000873 D-loop; other site 349520000874 H-loop/switch region; other site 349520000875 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 349520000876 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 349520000877 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349520000878 Walker A/P-loop; other site 349520000879 ATP binding site [chemical binding]; other site 349520000880 Q-loop/lid; other site 349520000881 ABC transporter signature motif; other site 349520000882 Walker B; other site 349520000883 D-loop; other site 349520000884 H-loop/switch region; other site 349520000885 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349520000886 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 349520000887 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 349520000888 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 349520000889 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520000890 Coenzyme A binding pocket [chemical binding]; other site 349520000891 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520000892 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520000893 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520000894 dimer interface [polypeptide binding]; other site 349520000895 conserved gate region; other site 349520000896 putative PBP binding loops; other site 349520000897 ABC-ATPase subunit interface; other site 349520000898 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520000899 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520000900 dimer interface [polypeptide binding]; other site 349520000901 conserved gate region; other site 349520000902 putative PBP binding loops; other site 349520000903 ABC-ATPase subunit interface; other site 349520000904 Cupin domain; Region: Cupin_2; pfam07883 349520000905 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 349520000906 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520000907 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520000908 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349520000909 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349520000910 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 349520000911 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 349520000912 active site 349520000913 zinc binding site [ion binding]; other site 349520000914 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 349520000915 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 349520000916 NAD binding site [chemical binding]; other site 349520000917 substrate binding site [chemical binding]; other site 349520000918 catalytic Zn binding site [ion binding]; other site 349520000919 tetramer interface [polypeptide binding]; other site 349520000920 structural Zn binding site [ion binding]; other site 349520000921 Predicted transcriptional regulators [Transcription]; Region: COG1733 349520000922 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 349520000923 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 349520000924 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 349520000925 putative substrate translocation pore; other site 349520000926 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 349520000927 active site 349520000928 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349520000929 catalytic tetrad [active] 349520000930 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520000931 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520000932 DNA binding site [nucleotide binding] 349520000933 domain linker motif; other site 349520000934 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 349520000935 dimerization interface [polypeptide binding]; other site 349520000936 ligand binding site [chemical binding]; other site 349520000937 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 349520000938 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 349520000939 substrate binding [chemical binding]; other site 349520000940 active site 349520000941 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 349520000942 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 349520000943 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 349520000944 active site turn [active] 349520000945 phosphorylation site [posttranslational modification] 349520000946 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 349520000947 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520000948 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520000949 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 349520000950 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 349520000951 domain interfaces; other site 349520000952 active site 349520000953 Protein of unknown function (DUF805); Region: DUF805; pfam05656 349520000954 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 349520000955 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 349520000956 substrate binding site [chemical binding]; other site 349520000957 active site 349520000958 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 349520000959 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 349520000960 DNA-binding site [nucleotide binding]; DNA binding site 349520000961 RNA-binding motif; other site 349520000962 Cold-inducible protein YdjO; Region: YdjO; pfam14169 349520000963 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 349520000964 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 349520000965 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 349520000966 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520000967 Coenzyme A binding pocket [chemical binding]; other site 349520000968 Predicted transcriptional regulators [Transcription]; Region: COG1725 349520000969 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520000970 DNA-binding site [nucleotide binding]; DNA binding site 349520000971 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 349520000972 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 349520000973 Walker A/P-loop; other site 349520000974 ATP binding site [chemical binding]; other site 349520000975 Q-loop/lid; other site 349520000976 ABC transporter signature motif; other site 349520000977 Walker B; other site 349520000978 D-loop; other site 349520000979 H-loop/switch region; other site 349520000980 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 349520000981 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 349520000982 Protein of unknown function (DUF1453); Region: DUF1453; cl02009 349520000983 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520000984 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 349520000985 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 349520000986 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520000987 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520000988 DNA binding site [nucleotide binding] 349520000989 domain linker motif; other site 349520000990 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 349520000991 dimerization interface [polypeptide binding]; other site 349520000992 ligand binding site [chemical binding]; other site 349520000993 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 349520000994 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 349520000995 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 349520000996 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 349520000997 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520000998 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520000999 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520001000 dimer interface [polypeptide binding]; other site 349520001001 conserved gate region; other site 349520001002 putative PBP binding loops; other site 349520001003 ABC-ATPase subunit interface; other site 349520001004 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520001005 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520001006 dimer interface [polypeptide binding]; other site 349520001007 conserved gate region; other site 349520001008 putative PBP binding loops; other site 349520001009 ABC-ATPase subunit interface; other site 349520001010 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 349520001011 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 349520001012 Sulfatase; Region: Sulfatase; pfam00884 349520001013 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 349520001014 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349520001015 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349520001016 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520001017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520001018 Walker A/P-loop; other site 349520001019 ATP binding site [chemical binding]; other site 349520001020 Q-loop/lid; other site 349520001021 ABC transporter signature motif; other site 349520001022 Walker B; other site 349520001023 D-loop; other site 349520001024 H-loop/switch region; other site 349520001025 Cys-rich peptide radical SAM maturase CcpM; Region: rSAM_ocin_clost; TIGR04068 349520001026 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 349520001027 FeS/SAM binding site; other site 349520001028 peptide maturation system protein, TIGR04066 family; Region: nat_prod_clost 349520001029 peptide maturation system acyl carrier-related protein; Region: ocin_ACP_rel; TIGR04069 349520001030 Peptidase S8 family domain, uncharacterized subfamily 8; Region: Peptidases_S8_8; cd07492 349520001031 active site 349520001032 catalytic triad [active] 349520001033 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 349520001034 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 349520001035 HSP90 family protein; Provisional; Region: PRK14083 349520001036 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 349520001037 ATP binding site [chemical binding]; other site 349520001038 G-X-G motif; other site 349520001039 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 349520001040 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 349520001041 active site 349520001042 catalytic site [active] 349520001043 metal binding site [ion binding]; metal-binding site 349520001044 dimer interface [polypeptide binding]; other site 349520001045 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 349520001046 S-adenosylmethionine binding site [chemical binding]; other site 349520001047 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 349520001048 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 349520001049 active site 349520001050 tetramer interface; other site 349520001051 Predicted membrane protein [Function unknown]; Region: COG2246 349520001052 GtrA-like protein; Region: GtrA; pfam04138 349520001053 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 349520001054 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 349520001055 Ligand binding site; other site 349520001056 Putative Catalytic site; other site 349520001057 DXD motif; other site 349520001058 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 349520001059 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 349520001060 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520001061 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 349520001062 active site 349520001063 phosphorylation site [posttranslational modification] 349520001064 intermolecular recognition site; other site 349520001065 dimerization interface [polypeptide binding]; other site 349520001066 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 349520001067 DNA binding site [nucleotide binding] 349520001068 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520001069 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 349520001070 dimerization interface [polypeptide binding]; other site 349520001071 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 349520001072 dimer interface [polypeptide binding]; other site 349520001073 phosphorylation site [posttranslational modification] 349520001074 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 349520001075 ATP binding site [chemical binding]; other site 349520001076 Mg2+ binding site [ion binding]; other site 349520001077 G-X-G motif; other site 349520001078 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 349520001079 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 349520001080 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 349520001081 putative active site [active] 349520001082 catalytic triad [active] 349520001083 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 349520001084 PA/protease or protease-like domain interface [polypeptide binding]; other site 349520001085 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 349520001086 S-layer homology domain; Region: SLH; pfam00395 349520001087 S-layer homology domain; Region: SLH; pfam00395 349520001088 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 349520001089 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 349520001090 DHHA2 domain; Region: DHHA2; pfam02833 349520001091 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 349520001092 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 349520001093 substrate binding pocket [chemical binding]; other site 349520001094 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 349520001095 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520001096 MarR family; Region: MarR; pfam01047 349520001097 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 349520001098 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 349520001099 active site 349520001100 DNA binding site [nucleotide binding] 349520001101 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 349520001102 DNA binding site [nucleotide binding] 349520001103 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520001104 Coenzyme A binding pocket [chemical binding]; other site 349520001105 Predicted membrane protein [Function unknown]; Region: COG2322 349520001106 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520001107 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520001108 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 349520001109 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520001110 dimer interface [polypeptide binding]; other site 349520001111 conserved gate region; other site 349520001112 putative PBP binding loops; other site 349520001113 ABC-ATPase subunit interface; other site 349520001114 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520001115 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520001116 dimer interface [polypeptide binding]; other site 349520001117 conserved gate region; other site 349520001118 putative PBP binding loops; other site 349520001119 ABC-ATPase subunit interface; other site 349520001120 beta-N-acetylglucosaminidase; Region: NAGidase; pfam07555 349520001121 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 349520001122 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 349520001123 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 349520001124 putative active site cavity [active] 349520001125 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 349520001126 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 349520001127 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 349520001128 putative active site [active] 349520001129 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 349520001130 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 349520001131 nucleotide binding site [chemical binding]; other site 349520001132 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 349520001133 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 349520001134 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 349520001135 PAS domain; Region: PAS_9; pfam13426 349520001136 putative active site [active] 349520001137 heme pocket [chemical binding]; other site 349520001138 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 349520001139 Histidine kinase; Region: HisKA_3; pfam07730 349520001140 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 349520001141 ATP binding site [chemical binding]; other site 349520001142 Mg2+ binding site [ion binding]; other site 349520001143 G-X-G motif; other site 349520001144 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349520001145 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 349520001146 active site 349520001147 phosphorylation site [posttranslational modification] 349520001148 intermolecular recognition site; other site 349520001149 dimerization interface [polypeptide binding]; other site 349520001150 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 349520001151 DNA binding residues [nucleotide binding] 349520001152 dimerization interface [polypeptide binding]; other site 349520001153 GAF domain; Region: GAF; pfam01590 349520001154 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349520001155 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 349520001156 ligand binding site [chemical binding]; other site 349520001157 flexible hinge region; other site 349520001158 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 349520001159 putative switch regulator; other site 349520001160 non-specific DNA interactions [nucleotide binding]; other site 349520001161 DNA binding site [nucleotide binding] 349520001162 sequence specific DNA binding site [nucleotide binding]; other site 349520001163 putative cAMP binding site [chemical binding]; other site 349520001164 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520001165 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520001166 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 349520001167 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520001168 dimer interface [polypeptide binding]; other site 349520001169 conserved gate region; other site 349520001170 putative PBP binding loops; other site 349520001171 ABC-ATPase subunit interface; other site 349520001172 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520001173 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520001174 dimer interface [polypeptide binding]; other site 349520001175 conserved gate region; other site 349520001176 putative PBP binding loops; other site 349520001177 ABC-ATPase subunit interface; other site 349520001178 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 349520001179 dimerization interface [polypeptide binding]; other site 349520001180 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 349520001181 Histidine kinase; Region: His_kinase; pfam06580 349520001182 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 349520001183 ATP binding site [chemical binding]; other site 349520001184 Mg2+ binding site [ion binding]; other site 349520001185 G-X-G motif; other site 349520001186 Response regulator receiver domain; Region: Response_reg; pfam00072 349520001187 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 349520001188 active site 349520001189 phosphorylation site [posttranslational modification] 349520001190 intermolecular recognition site; other site 349520001191 dimerization interface [polypeptide binding]; other site 349520001192 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 349520001193 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520001194 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520001195 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520001196 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520001197 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 349520001198 dimerization interface [polypeptide binding]; other site 349520001199 aromatic acid decarboxylase; Validated; Region: PRK05920 349520001200 Flavoprotein; Region: Flavoprotein; pfam02441 349520001201 UbiD family decarboxylase; Region: TIGR00148 349520001202 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 349520001203 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 349520001204 Beta-lactamase; Region: Beta-lactamase; pfam00144 349520001205 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 349520001206 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 349520001207 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 349520001208 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 349520001209 ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-like; cd04879 349520001210 L-serine binding site [chemical binding]; other site 349520001211 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 349520001212 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 349520001213 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349520001214 Walker A/P-loop; other site 349520001215 ATP binding site [chemical binding]; other site 349520001216 Q-loop/lid; other site 349520001217 ABC transporter signature motif; other site 349520001218 Walker B; other site 349520001219 D-loop; other site 349520001220 H-loop/switch region; other site 349520001221 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349520001222 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 349520001223 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349520001224 Walker A/P-loop; other site 349520001225 ATP binding site [chemical binding]; other site 349520001226 Q-loop/lid; other site 349520001227 ABC transporter signature motif; other site 349520001228 Walker B; other site 349520001229 D-loop; other site 349520001230 H-loop/switch region; other site 349520001231 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349520001232 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349520001233 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520001234 dimer interface [polypeptide binding]; other site 349520001235 conserved gate region; other site 349520001236 putative PBP binding loops; other site 349520001237 ABC-ATPase subunit interface; other site 349520001238 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 349520001239 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520001240 dimer interface [polypeptide binding]; other site 349520001241 conserved gate region; other site 349520001242 putative PBP binding loops; other site 349520001243 ABC-ATPase subunit interface; other site 349520001244 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 349520001245 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 349520001246 peptide binding site [polypeptide binding]; other site 349520001247 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520001248 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 349520001249 dimerization interface [polypeptide binding]; other site 349520001250 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520001251 dimer interface [polypeptide binding]; other site 349520001252 conserved gate region; other site 349520001253 putative PBP binding loops; other site 349520001254 ABC-ATPase subunit interface; other site 349520001255 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349520001256 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520001257 dimer interface [polypeptide binding]; other site 349520001258 conserved gate region; other site 349520001259 putative PBP binding loops; other site 349520001260 ABC-ATPase subunit interface; other site 349520001261 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349520001262 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 349520001263 substrate binding pocket [chemical binding]; other site 349520001264 membrane-bound complex binding site; other site 349520001265 hinge residues; other site 349520001266 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349520001267 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 349520001268 Walker A/P-loop; other site 349520001269 ATP binding site [chemical binding]; other site 349520001270 Q-loop/lid; other site 349520001271 ABC transporter signature motif; other site 349520001272 Walker B; other site 349520001273 D-loop; other site 349520001274 H-loop/switch region; other site 349520001275 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 349520001276 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 349520001277 active site 349520001278 catalytic site [active] 349520001279 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 349520001280 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 349520001281 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520001282 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520001283 Protein of unknown function (DUF445); Region: DUF445; pfam04286 349520001284 conserved hypothetical protein; Region: TIGR02328 349520001285 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 349520001286 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 349520001287 dimer interface [polypeptide binding]; other site 349520001288 FMN binding site [chemical binding]; other site 349520001289 Predicted transcriptional regulators [Transcription]; Region: COG1733 349520001290 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 349520001291 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520001292 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 349520001293 active site 349520001294 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 349520001295 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 349520001296 CopC domain; Region: CopC; pfam04234 349520001297 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 349520001298 YtkA-like; Region: YtkA; pfam13115 349520001299 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 349520001300 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349520001301 metal binding site [ion binding]; metal-binding site 349520001302 active site 349520001303 I-site; other site 349520001304 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 349520001305 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 349520001306 Zn2+ binding site [ion binding]; other site 349520001307 Mg2+ binding site [ion binding]; other site 349520001308 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 349520001309 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 349520001310 putative substrate translocation pore; other site 349520001311 Staphylococcus aureus copper-sensitive operon repressor (CsoR), and related domains; this family was previously known as part of DUF156; Region: SaCsoR-like_DUF156; cd10152 349520001312 putative homodimer interface [polypeptide binding]; other site 349520001313 putative homotetramer interface [polypeptide binding]; other site 349520001314 allosteric switch controlling residues; other site 349520001315 putative metal binding site [ion binding]; other site 349520001316 putative homodimer-homodimer interface [polypeptide binding]; other site 349520001317 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 349520001318 metal-binding site [ion binding] 349520001319 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 349520001320 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 349520001321 metal-binding site [ion binding] 349520001322 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 349520001323 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 349520001324 metal-binding site [ion binding] 349520001325 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349520001326 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 349520001327 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 349520001328 dimer interface [polypeptide binding]; other site 349520001329 FMN binding site [chemical binding]; other site 349520001330 NADPH bind site [chemical binding]; other site 349520001331 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 349520001332 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 349520001333 active site 349520001334 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 349520001335 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 349520001336 Walker A/P-loop; other site 349520001337 ATP binding site [chemical binding]; other site 349520001338 Q-loop/lid; other site 349520001339 ABC transporter signature motif; other site 349520001340 Walker B; other site 349520001341 D-loop; other site 349520001342 H-loop/switch region; other site 349520001343 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 349520001344 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520001345 dimer interface [polypeptide binding]; other site 349520001346 conserved gate region; other site 349520001347 putative PBP binding loops; other site 349520001348 ABC-ATPase subunit interface; other site 349520001349 Domain of unknown function DUF77; Region: DUF77; pfam01910 349520001350 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 349520001351 NMT1/THI5 like; Region: NMT1; pfam09084 349520001352 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 349520001353 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 349520001354 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 349520001355 active site 349520001356 metal binding site [ion binding]; metal-binding site 349520001357 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 349520001358 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 349520001359 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 349520001360 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 349520001361 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 349520001362 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 349520001363 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 349520001364 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349520001365 substrate binding site [chemical binding]; other site 349520001366 activation loop (A-loop); other site 349520001367 Strictosidine synthase; Region: Str_synth; pfam03088 349520001368 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 349520001369 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520001370 NAD(P) binding site [chemical binding]; other site 349520001371 active site 349520001372 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 349520001373 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 349520001374 Ca binding site [ion binding]; other site 349520001375 active site 349520001376 catalytic site [active] 349520001377 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 349520001378 Soluble P-type ATPase [General function prediction only]; Region: COG4087 349520001379 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 349520001380 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 349520001381 NodB motif; other site 349520001382 active site 349520001383 catalytic site [active] 349520001384 Cd binding site [ion binding]; other site 349520001385 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 349520001386 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 349520001387 Walker A/P-loop; other site 349520001388 ATP binding site [chemical binding]; other site 349520001389 Q-loop/lid; other site 349520001390 ABC transporter signature motif; other site 349520001391 Walker B; other site 349520001392 D-loop; other site 349520001393 H-loop/switch region; other site 349520001394 NIL domain; Region: NIL; pfam09383 349520001395 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520001396 ABC-ATPase subunit interface; other site 349520001397 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 349520001398 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 349520001399 DNA binding residues [nucleotide binding] 349520001400 putative dimer interface [polypeptide binding]; other site 349520001401 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 349520001402 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349520001403 active site 349520001404 catalytic tetrad [active] 349520001405 S-layer homology domain; Region: SLH; pfam00395 349520001406 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 349520001407 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520001408 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 349520001409 dimer interface [polypeptide binding]; other site 349520001410 phosphorylation site [posttranslational modification] 349520001411 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 349520001412 ATP binding site [chemical binding]; other site 349520001413 Mg2+ binding site [ion binding]; other site 349520001414 G-X-G motif; other site 349520001415 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 349520001416 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 349520001417 active site 349520001418 phosphorylation site [posttranslational modification] 349520001419 intermolecular recognition site; other site 349520001420 dimerization interface [polypeptide binding]; other site 349520001421 Histidine kinase; Region: His_kinase; pfam06580 349520001422 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 349520001423 ATP binding site [chemical binding]; other site 349520001424 Mg2+ binding site [ion binding]; other site 349520001425 G-X-G motif; other site 349520001426 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 349520001427 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 349520001428 active site 349520001429 phosphorylation site [posttranslational modification] 349520001430 intermolecular recognition site; other site 349520001431 dimerization interface [polypeptide binding]; other site 349520001432 DNA binding site [nucleotide binding] 349520001433 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 349520001434 maltodextrin glucosidase; Provisional; Region: PRK10785 349520001435 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 349520001436 homodimer interface [polypeptide binding]; other site 349520001437 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 349520001438 active site 349520001439 homodimer interface [polypeptide binding]; other site 349520001440 catalytic site [active] 349520001441 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 349520001442 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520001443 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 349520001444 active site 349520001445 phosphorylation site [posttranslational modification] 349520001446 intermolecular recognition site; other site 349520001447 dimerization interface [polypeptide binding]; other site 349520001448 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 349520001449 DNA binding site [nucleotide binding] 349520001450 HAMP domain; Region: HAMP; pfam00672 349520001451 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520001452 dimerization interface [polypeptide binding]; other site 349520001453 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 349520001454 dimer interface [polypeptide binding]; other site 349520001455 phosphorylation site [posttranslational modification] 349520001456 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 349520001457 ATP binding site [chemical binding]; other site 349520001458 Mg2+ binding site [ion binding]; other site 349520001459 G-X-G motif; other site 349520001460 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 349520001461 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 349520001462 Walker A/P-loop; other site 349520001463 ATP binding site [chemical binding]; other site 349520001464 Q-loop/lid; other site 349520001465 ABC transporter signature motif; other site 349520001466 Walker B; other site 349520001467 D-loop; other site 349520001468 H-loop/switch region; other site 349520001469 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 349520001470 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 349520001471 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 349520001472 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 349520001473 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 349520001474 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 349520001475 tetramer (dimer of dimers) interface [polypeptide binding]; other site 349520001476 NAD binding site [chemical binding]; other site 349520001477 dimer interface [polypeptide binding]; other site 349520001478 substrate binding site [chemical binding]; other site 349520001479 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 349520001480 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 349520001481 DNA binding residues [nucleotide binding] 349520001482 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 349520001483 Catalytic domain of Protein Kinases; Region: PKc; cd00180 349520001484 active site 349520001485 ATP binding site [chemical binding]; other site 349520001486 substrate binding site [chemical binding]; other site 349520001487 activation loop (A-loop); other site 349520001488 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 349520001489 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 349520001490 N- and C-terminal domain interface [polypeptide binding]; other site 349520001491 active site 349520001492 catalytic site [active] 349520001493 metal binding site [ion binding]; metal-binding site 349520001494 carbohydrate binding site [chemical binding]; other site 349520001495 ATP binding site [chemical binding]; other site 349520001496 fructuronate transporter; Provisional; Region: PRK10034; cl15264 349520001497 GntP family permease; Region: GntP_permease; pfam02447 349520001498 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349520001499 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520001500 DNA-binding site [nucleotide binding]; DNA binding site 349520001501 FCD domain; Region: FCD; pfam07729 349520001502 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 349520001503 active site 349520001504 Protein of unknown function (DUF1453); Region: DUF1453; pfam07301 349520001505 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 349520001506 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 349520001507 dimer interface [polypeptide binding]; other site 349520001508 FMN binding site [chemical binding]; other site 349520001509 Predicted integral membrane protein [Function unknown]; Region: COG0392 349520001510 Uncharacterized conserved protein [Function unknown]; Region: COG2898 349520001511 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 349520001512 Predicted ATPase [General function prediction only]; Region: COG3910 349520001513 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520001514 Walker A/P-loop; other site 349520001515 ATP binding site [chemical binding]; other site 349520001516 Q-loop/lid; other site 349520001517 ABC transporter signature motif; other site 349520001518 Walker B; other site 349520001519 D-loop; other site 349520001520 H-loop/switch region; other site 349520001521 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 349520001522 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 349520001523 putative substrate translocation pore; other site 349520001524 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 349520001525 Predicted transcriptional regulator [Transcription]; Region: COG4189 349520001526 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 349520001527 putative DNA binding site [nucleotide binding]; other site 349520001528 dimerization interface [polypeptide binding]; other site 349520001529 putative Zn2+ binding site [ion binding]; other site 349520001530 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 349520001531 NADH(P)-binding; Region: NAD_binding_10; pfam13460 349520001532 NAD binding site [chemical binding]; other site 349520001533 putative active site [active] 349520001534 substrate binding site [chemical binding]; other site 349520001535 Uncharacterized conserved protein [Function unknown]; Region: COG0062 349520001536 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 349520001537 putative substrate binding site [chemical binding]; other site 349520001538 putative ATP binding site [chemical binding]; other site 349520001539 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 349520001540 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 349520001541 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 349520001542 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349520001543 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520001544 dimer interface [polypeptide binding]; other site 349520001545 putative CheW interface [polypeptide binding]; other site 349520001546 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 349520001547 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 349520001548 dimer interface [polypeptide binding]; other site 349520001549 putative radical transfer pathway; other site 349520001550 diiron center [ion binding]; other site 349520001551 tyrosyl radical; other site 349520001552 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09209 349520001553 ATP cone domain; Region: ATP-cone; pfam03477 349520001554 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 349520001555 Ribonucleotide reductase, barrel domain; Region: Ribonuc_red_lgC; pfam02867 349520001556 Domain of unknown function DUF77; Region: DUF77; pfam01910 349520001557 stage V sporulation protein B; Region: spore_V_B; TIGR02900 349520001558 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 349520001559 Putative amidase domain; Region: Amidase_6; pfam12671 349520001560 Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for...; Region: Sortase_E; cd05829 349520001561 active site 349520001562 putative catalytic site [active] 349520001563 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 349520001564 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 349520001565 NodB motif; other site 349520001566 active site 349520001567 catalytic site [active] 349520001568 metal binding site [ion binding]; metal-binding site 349520001569 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 349520001570 non-specific DNA binding site [nucleotide binding]; other site 349520001571 salt bridge; other site 349520001572 sequence-specific DNA binding site [nucleotide binding]; other site 349520001573 Helix-turn-helix domain; Region: HTH_28; pfam13518 349520001574 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 349520001575 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 349520001576 active site 349520001577 Acyltransferase family; Region: Acyl_transf_3; pfam01757 349520001578 SPRY domain-like in bacteria; Region: SPRY_like; cd12886 349520001579 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 349520001580 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 349520001581 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 349520001582 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 349520001583 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 349520001584 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 349520001585 Dienelactone hydrolase family; Region: DLH; pfam01738 349520001586 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 349520001587 dimerization interface [polypeptide binding]; other site 349520001588 putative DNA binding site [nucleotide binding]; other site 349520001589 putative Zn2+ binding site [ion binding]; other site 349520001590 potential frameshift: common BLAST hit: gi|52787400|ref|YP_093229.1| YdfE 349520001591 Flavin Reductases; Region: FlaRed; cl00801 349520001592 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08248 349520001593 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 349520001594 homodimer interface [polypeptide binding]; other site 349520001595 substrate-cofactor binding pocket; other site 349520001596 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520001597 catalytic residue [active] 349520001598 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 349520001599 Cadherin cytoplasmic region; Region: Cadherin_C; pfam01049 349520001600 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349520001601 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349520001602 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 349520001603 active site residue [active] 349520001604 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 349520001605 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 349520001606 dimerization interface [polypeptide binding]; other site 349520001607 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 349520001608 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 349520001609 Zn2+ binding site [ion binding]; other site 349520001610 Mg2+ binding site [ion binding]; other site 349520001611 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 349520001612 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 349520001613 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520001614 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 349520001615 dimer interface [polypeptide binding]; other site 349520001616 phosphorylation site [posttranslational modification] 349520001617 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 349520001618 ATP binding site [chemical binding]; other site 349520001619 Mg2+ binding site [ion binding]; other site 349520001620 G-X-G motif; other site 349520001621 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 349520001622 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 349520001623 NAD binding site [chemical binding]; other site 349520001624 active site 349520001625 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 349520001626 homotrimer interaction site [polypeptide binding]; other site 349520001627 putative active site [active] 349520001628 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 349520001629 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 349520001630 Sodium Bile acid symporter family; Region: SBF; pfam01758 349520001631 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 349520001632 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 349520001633 putative active site [active] 349520001634 putative FMN binding site [chemical binding]; other site 349520001635 putative substrate binding site [chemical binding]; other site 349520001636 putative catalytic residue [active] 349520001637 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 349520001638 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 349520001639 Response regulator receiver domain; Region: Response_reg; pfam00072 349520001640 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 349520001641 active site 349520001642 phosphorylation site [posttranslational modification] 349520001643 intermolecular recognition site; other site 349520001644 dimerization interface [polypeptide binding]; other site 349520001645 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 349520001646 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520001647 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520001648 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 349520001649 Cache domain; Region: Cache_1; pfam02743 349520001650 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 349520001651 dimerization interface [polypeptide binding]; other site 349520001652 Histidine kinase; Region: His_kinase; pfam06580 349520001653 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 349520001654 ATP binding site [chemical binding]; other site 349520001655 Mg2+ binding site [ion binding]; other site 349520001656 G-X-G motif; other site 349520001657 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 349520001658 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520001659 dimer interface [polypeptide binding]; other site 349520001660 conserved gate region; other site 349520001661 putative PBP binding loops; other site 349520001662 ABC-ATPase subunit interface; other site 349520001663 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520001664 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520001665 dimer interface [polypeptide binding]; other site 349520001666 conserved gate region; other site 349520001667 putative PBP binding loops; other site 349520001668 ABC-ATPase subunit interface; other site 349520001669 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520001670 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520001671 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 349520001672 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl17426 349520001673 folate binding site [chemical binding]; other site 349520001674 NADP+ binding site [chemical binding]; other site 349520001675 Predicted transcriptional regulator [Transcription]; Region: COG2378 349520001676 HTH domain; Region: HTH_11; pfam08279 349520001677 WYL domain; Region: WYL; pfam13280 349520001678 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 349520001679 SNF2 Helicase protein; Region: DUF3670; pfam12419 349520001680 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 349520001681 ATP binding site [chemical binding]; other site 349520001682 putative Mg++ binding site [ion binding]; other site 349520001683 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 349520001684 nucleotide binding region [chemical binding]; other site 349520001685 ATP-binding site [chemical binding]; other site 349520001686 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 349520001687 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 349520001688 Glutathionylspermidine synthase preATP-grasp; Region: GSP_synth; cl00503 349520001689 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 349520001690 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 349520001691 Domain of unknown function (DUF4275); Region: DUF4275; pfam14101 349520001692 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 349520001693 GAF domain; Region: GAF; pfam01590 349520001694 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 349520001695 PAS domain; Region: PAS_9; pfam13426 349520001696 putative active site [active] 349520001697 heme pocket [chemical binding]; other site 349520001698 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 349520001699 PAS domain; Region: PAS_9; pfam13426 349520001700 putative active site [active] 349520001701 heme pocket [chemical binding]; other site 349520001702 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 349520001703 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 349520001704 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 349520001705 anti sigma factor interaction site; other site 349520001706 regulatory phosphorylation site [posttranslational modification]; other site 349520001707 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 349520001708 dimerization interface [polypeptide binding]; other site 349520001709 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349520001710 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520001711 dimer interface [polypeptide binding]; other site 349520001712 putative CheW interface [polypeptide binding]; other site 349520001713 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349520001714 short chain dehydrogenase; Provisional; Region: PRK06180 349520001715 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 349520001716 NADP binding site [chemical binding]; other site 349520001717 active site 349520001718 steroid binding site; other site 349520001719 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 349520001720 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 349520001721 DNA binding residues [nucleotide binding] 349520001722 putative dimer interface [polypeptide binding]; other site 349520001723 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349520001724 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349520001725 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 349520001726 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 349520001727 putative NADH binding site [chemical binding]; other site 349520001728 putative active site [active] 349520001729 nudix motif; other site 349520001730 putative metal binding site [ion binding]; other site 349520001731 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 349520001732 putative substrate translocation pore; other site 349520001733 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 349520001734 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520001735 MarR family; Region: MarR_2; pfam12802 349520001736 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520001737 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520001738 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 349520001739 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 349520001740 putative substrate translocation pore; other site 349520001741 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 349520001742 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520001743 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520001744 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 349520001745 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 349520001746 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 349520001747 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 349520001748 active site 349520001749 dimer interface [polypeptide binding]; other site 349520001750 motif 1; other site 349520001751 motif 2; other site 349520001752 motif 3; other site 349520001753 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 349520001754 anticodon binding site; other site 349520001755 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 349520001756 synthetase active site [active] 349520001757 NTP binding site [chemical binding]; other site 349520001758 metal binding site [ion binding]; metal-binding site 349520001759 S-ribosylhomocysteinase; Provisional; Region: PRK02260 349520001760 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 349520001761 classical (c) SDRs; Region: SDR_c; cd05233 349520001762 NAD(P) binding site [chemical binding]; other site 349520001763 active site 349520001764 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 349520001765 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 349520001766 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520001767 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520001768 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520001769 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 349520001770 Melibiase; Region: Melibiase; pfam02065 349520001771 MgpC protein precursor; Region: MgpC; pfam05220 349520001772 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 349520001773 Histidine kinase; Region: His_kinase; pfam06580 349520001774 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 349520001775 ATP binding site [chemical binding]; other site 349520001776 Mg2+ binding site [ion binding]; other site 349520001777 G-X-G motif; other site 349520001778 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 349520001779 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 349520001780 active site 349520001781 phosphorylation site [posttranslational modification] 349520001782 intermolecular recognition site; other site 349520001783 dimerization interface [polypeptide binding]; other site 349520001784 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520001785 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 349520001786 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520001787 dimer interface [polypeptide binding]; other site 349520001788 conserved gate region; other site 349520001789 putative PBP binding loops; other site 349520001790 ABC-ATPase subunit interface; other site 349520001791 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520001792 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520001793 dimer interface [polypeptide binding]; other site 349520001794 conserved gate region; other site 349520001795 ABC-ATPase subunit interface; other site 349520001796 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520001797 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 349520001798 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 349520001799 putative metal binding site [ion binding]; other site 349520001800 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 349520001801 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 349520001802 dimer interface [polypeptide binding]; other site 349520001803 putative tRNA-binding site [nucleotide binding]; other site 349520001804 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 349520001805 Part of AAA domain; Region: AAA_19; pfam13245 349520001806 Family description; Region: UvrD_C_2; pfam13538 349520001807 Cold-inducible protein YdjO; Region: YdjO; pfam14169 349520001808 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 349520001809 Predicted transcriptional regulators [Transcription]; Region: COG1378 349520001810 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 349520001811 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 349520001812 C-terminal domain interface [polypeptide binding]; other site 349520001813 sugar binding site [chemical binding]; other site 349520001814 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 349520001815 nudix motif; other site 349520001816 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 349520001817 catalytic core [active] 349520001818 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 349520001819 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 349520001820 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 349520001821 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 349520001822 Uncharacterized conserved protein [Function unknown]; Region: COG2128 349520001823 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 349520001824 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349520001825 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 349520001826 DNA binding residues [nucleotide binding] 349520001827 Predicted membrane protein [Function unknown]; Region: COG4818 349520001828 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 349520001829 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 349520001830 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 349520001831 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 349520001832 Beta-lactamase; Region: Beta-lactamase; pfam00144 349520001833 tRNA-specific 2-thiouridylase MnmA; Reviewed; Region: mnmA; PRK00143 349520001834 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 349520001835 active site 349520001836 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 349520001837 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 349520001838 Uncharacterized conserved protein [Function unknown]; Region: COG2461 349520001839 Family of unknown function (DUF438); Region: DUF438; pfam04282 349520001840 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 349520001841 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 349520001842 Predicted transcriptional regulators [Transcription]; Region: COG1725 349520001843 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520001844 DNA-binding site [nucleotide binding]; DNA binding site 349520001845 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 349520001846 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 349520001847 Walker A/P-loop; other site 349520001848 ATP binding site [chemical binding]; other site 349520001849 Q-loop/lid; other site 349520001850 ABC transporter signature motif; other site 349520001851 Walker B; other site 349520001852 D-loop; other site 349520001853 H-loop/switch region; other site 349520001854 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 349520001855 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520001856 Walker A/P-loop; other site 349520001857 ATP binding site [chemical binding]; other site 349520001858 Q-loop/lid; other site 349520001859 ABC transporter signature motif; other site 349520001860 Walker B; other site 349520001861 D-loop; other site 349520001862 H-loop/switch region; other site 349520001863 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 349520001864 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 349520001865 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 349520001866 Cache domain; Region: Cache_1; pfam02743 349520001867 HAMP domain; Region: HAMP; pfam00672 349520001868 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 349520001869 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349520001870 metal binding site [ion binding]; metal-binding site 349520001871 active site 349520001872 I-site; other site 349520001873 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520001874 Peptidases of the G1 family and homologs that might lack peptidase activity; Region: Peptidase_G1_like; cl03371 349520001875 ASC-1 homology domain, ASC-1-like subfamily. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain...; Region: ASCH_ASC-1_like; cd06554 349520001876 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 349520001877 hydrophobic ligand binding site; other site 349520001878 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520001879 MarR family; Region: MarR; pfam01047 349520001880 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 349520001881 binding surface 349520001882 TPR motif; other site 349520001883 Tetratricopeptide repeat; Region: TPR_12; pfam13424 349520001884 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 349520001885 binding surface 349520001886 Tetratricopeptide repeat; Region: TPR_16; pfam13432 349520001887 TPR motif; other site 349520001888 TPR repeat; Region: TPR_11; pfam13414 349520001889 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 349520001890 binding surface 349520001891 TPR motif; other site 349520001892 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 349520001893 Beta-galactosidase, domain 2; Region: BetaGal_dom2; smart01029 349520001894 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 349520001895 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 349520001896 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 349520001897 Uncharacterized conserved protein [Function unknown]; Region: COG0327 349520001898 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 349520001899 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520001900 putative substrate translocation pore; other site 349520001901 maltose O-acetyltransferase; Provisional; Region: PRK10092 349520001902 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 349520001903 active site 349520001904 substrate binding site [chemical binding]; other site 349520001905 trimer interface [polypeptide binding]; other site 349520001906 CoA binding site [chemical binding]; other site 349520001907 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 349520001908 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 349520001909 non-specific DNA binding site [nucleotide binding]; other site 349520001910 salt bridge; other site 349520001911 sequence-specific DNA binding site [nucleotide binding]; other site 349520001912 Cupin domain; Region: Cupin_2; pfam07883 349520001913 LysE type translocator; Region: LysE; cl00565 349520001914 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 349520001915 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 349520001916 Ca binding site [ion binding]; other site 349520001917 active site 349520001918 catalytic site [active] 349520001919 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 349520001920 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 349520001921 active site turn [active] 349520001922 phosphorylation site [posttranslational modification] 349520001923 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 349520001924 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 349520001925 HPr interaction site; other site 349520001926 glycerol kinase (GK) interaction site [polypeptide binding]; other site 349520001927 active site 349520001928 phosphorylation site [posttranslational modification] 349520001929 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520001930 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 349520001931 DNA-binding site [nucleotide binding]; DNA binding site 349520001932 UTRA domain; Region: UTRA; pfam07702 349520001933 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 349520001934 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 349520001935 Spore germination protein; Region: Spore_permease; cl17796 349520001936 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 349520001937 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 349520001938 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349520001939 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 349520001940 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 349520001941 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 349520001942 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 349520001943 iron-sulfur cluster [ion binding]; other site 349520001944 [2Fe-2S] cluster binding site [ion binding]; other site 349520001945 BclB C-terminal domain; Region: exospore_TM; TIGR03721 349520001946 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 349520001947 sugar binding site [chemical binding]; other site 349520001948 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 349520001949 Interdomain contacts; other site 349520001950 Cytokine receptor motif; other site 349520001951 S-layer homology domain; Region: SLH; pfam00395 349520001952 S-layer homology domain; Region: SLH; pfam00395 349520001953 S-layer homology domain; Region: SLH; pfam00395 349520001954 Phage Tail Collar Domain; Region: Collar; pfam07484 349520001955 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 349520001956 Spore germination protein; Region: Spore_permease; pfam03845 349520001957 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 349520001958 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 349520001959 Predicted transcriptional regulators [Transcription]; Region: COG1695 349520001960 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 349520001961 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 349520001962 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; cl01382 349520001963 Predicted transcriptional regulators [Transcription]; Region: COG1733 349520001964 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 349520001965 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 349520001966 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520001967 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 349520001968 active site 349520001969 phosphorylation site [posttranslational modification] 349520001970 intermolecular recognition site; other site 349520001971 dimerization interface [polypeptide binding]; other site 349520001972 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 349520001973 DNA binding site [nucleotide binding] 349520001974 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 349520001975 dimerization interface [polypeptide binding]; other site 349520001976 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 349520001977 dimer interface [polypeptide binding]; other site 349520001978 phosphorylation site [posttranslational modification] 349520001979 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 349520001980 ATP binding site [chemical binding]; other site 349520001981 Mg2+ binding site [ion binding]; other site 349520001982 G-X-G motif; other site 349520001983 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 349520001984 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 349520001985 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 349520001986 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 349520001987 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 349520001988 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 349520001989 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 349520001990 Predicted flavoprotein [General function prediction only]; Region: COG0431 349520001991 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 349520001992 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 349520001993 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 349520001994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 349520001995 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 349520001996 dimer interface [polypeptide binding]; other site 349520001997 FMN binding site [chemical binding]; other site 349520001998 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 349520001999 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349520002000 Zn binding site [ion binding]; other site 349520002001 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 349520002002 Zn binding site [ion binding]; other site 349520002003 SWIM zinc finger; Region: SWIM; pfam04434 349520002004 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 349520002005 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 349520002006 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 349520002007 ATP binding site [chemical binding]; other site 349520002008 putative Mg++ binding site [ion binding]; other site 349520002009 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 349520002010 nucleotide binding region [chemical binding]; other site 349520002011 ATP-binding site [chemical binding]; other site 349520002012 Lipase (class 3). 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...; Region: Lipase_3; cd00519 349520002013 active site flap/lid [active] 349520002014 nucleophilic elbow; other site 349520002015 catalytic triad [active] 349520002016 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_2; cd06160 349520002017 active site 349520002018 putative substrate binding region [chemical binding]; other site 349520002019 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 349520002020 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520002021 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520002022 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 349520002023 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 349520002024 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 349520002025 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 349520002026 HAMP domain; Region: HAMP; pfam00672 349520002027 Histidine kinase; Region: His_kinase; pfam06580 349520002028 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 349520002029 ATP binding site [chemical binding]; other site 349520002030 Mg2+ binding site [ion binding]; other site 349520002031 G-X-G motif; other site 349520002032 Response regulator receiver domain; Region: Response_reg; pfam00072 349520002033 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 349520002034 active site 349520002035 phosphorylation site [posttranslational modification] 349520002036 intermolecular recognition site; other site 349520002037 dimerization interface [polypeptide binding]; other site 349520002038 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520002039 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520002040 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520002041 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520002042 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 349520002043 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520002044 dimer interface [polypeptide binding]; other site 349520002045 conserved gate region; other site 349520002046 putative PBP binding loops; other site 349520002047 ABC-ATPase subunit interface; other site 349520002048 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520002049 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520002050 dimer interface [polypeptide binding]; other site 349520002051 conserved gate region; other site 349520002052 putative PBP binding loops; other site 349520002053 ABC-ATPase subunit interface; other site 349520002054 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 349520002055 metal coordination site [ion binding]; other site 349520002056 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 349520002057 calcium mediated ligand binding site; other site 349520002058 intermolecular salt bridges; other site 349520002059 chaperonin_like superfamily. 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. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 349520002060 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 349520002061 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 349520002062 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 349520002063 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 349520002064 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520002065 DNA-binding site [nucleotide binding]; DNA binding site 349520002066 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 349520002067 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520002068 homodimer interface [polypeptide binding]; other site 349520002069 catalytic residue [active] 349520002070 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 349520002071 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520002072 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520002073 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 349520002074 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 349520002075 DNA binding residues [nucleotide binding] 349520002076 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 349520002077 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 349520002078 putative substrate translocation pore; other site 349520002079 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 349520002080 Ligand Binding Site [chemical binding]; other site 349520002081 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 349520002082 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349520002083 NAD(P) binding site [chemical binding]; other site 349520002084 catalytic residues [active] 349520002085 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520002086 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 349520002087 SnoaL-like domain; Region: SnoaL_2; pfam12680 349520002088 potential frameshift: common BLAST hit: gi|150018173|ref|YP_001310427.1| helix-turn-helix, type 11 domain-containing protein 349520002089 WYL domain; Region: WYL; pfam13280 349520002090 HTH domain; Region: HTH_11; pfam08279 349520002091 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 349520002092 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 349520002093 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 349520002094 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 349520002095 short chain dehydrogenase; Provisional; Region: PRK07454 349520002096 Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs; Region: carb_red_PTCR-like_SDR_c; cd05324 349520002097 NADP binding site [chemical binding]; other site 349520002098 substrate binding site [chemical binding]; other site 349520002099 active site 349520002100 Predicted transcriptional regulators [Transcription]; Region: COG1733 349520002101 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 349520002102 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 349520002103 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 349520002104 dimerization interface [polypeptide binding]; other site 349520002105 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520002106 dimer interface [polypeptide binding]; other site 349520002107 putative CheW interface [polypeptide binding]; other site 349520002108 short chain dehydrogenase; Provisional; Region: PRK12939 349520002109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520002110 NAD(P) binding site [chemical binding]; other site 349520002111 active site 349520002112 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 349520002113 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 349520002114 DNA binding residues [nucleotide binding] 349520002115 putative dimer interface [polypeptide binding]; other site 349520002116 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 349520002117 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349520002118 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 349520002119 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 349520002120 DNA binding residues [nucleotide binding] 349520002121 dimer interface [polypeptide binding]; other site 349520002122 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 349520002123 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 349520002124 GAF domain; Region: GAF_2; pfam13185 349520002125 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 349520002126 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 349520002127 Cobalt transport protein; Region: CbiQ; cl00463 349520002128 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 349520002129 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 349520002130 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 349520002131 Walker A/P-loop; other site 349520002132 ATP binding site [chemical binding]; other site 349520002133 Q-loop/lid; other site 349520002134 ABC transporter signature motif; other site 349520002135 Walker B; other site 349520002136 D-loop; other site 349520002137 H-loop/switch region; other site 349520002138 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 349520002139 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 349520002140 Walker A/P-loop; other site 349520002141 ATP binding site [chemical binding]; other site 349520002142 Q-loop/lid; other site 349520002143 ABC transporter signature motif; other site 349520002144 Walker B; other site 349520002145 D-loop; other site 349520002146 H-loop/switch region; other site 349520002147 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 349520002148 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520002149 putative substrate translocation pore; other site 349520002150 Levansucrase/Invertase; Region: Glyco_hydro_68; pfam02435 349520002151 active site 349520002152 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 349520002153 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 349520002154 substrate binding [chemical binding]; other site 349520002155 active site 349520002156 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 349520002157 MarR family; Region: MarR_2; cl17246 349520002158 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520002159 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 349520002160 LysE type translocator; Region: LysE; pfam01810 349520002161 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 349520002162 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 349520002163 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 349520002164 HI0933-like protein; Region: HI0933_like; pfam03486 349520002165 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349520002166 PAS fold; Region: PAS_4; pfam08448 349520002167 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 349520002168 dimer interface [polypeptide binding]; other site 349520002169 phosphorylation site [posttranslational modification] 349520002170 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 349520002171 ATP binding site [chemical binding]; other site 349520002172 Mg2+ binding site [ion binding]; other site 349520002173 G-X-G motif; other site 349520002174 bacillithiol system oxidoreductase, YphP/YqiW family; Region: YphP_YqiW; TIGR04191 349520002175 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 349520002176 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 349520002177 homodimer interface [polypeptide binding]; other site 349520002178 NAD binding pocket [chemical binding]; other site 349520002179 ATP binding pocket [chemical binding]; other site 349520002180 Mg binding site [ion binding]; other site 349520002181 active-site loop [active] 349520002182 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349520002183 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 349520002184 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 349520002185 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 349520002186 minor groove reading motif; other site 349520002187 helix-hairpin-helix signature motif; other site 349520002188 substrate binding pocket [chemical binding]; other site 349520002189 active site 349520002190 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 349520002191 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 349520002192 DNA binding and oxoG recognition site [nucleotide binding] 349520002193 SnoaL-like domain; Region: SnoaL_2; pfam12680 349520002194 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 349520002195 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 349520002196 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520002197 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520002198 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 349520002199 Melibiase; Region: Melibiase; pfam02065 349520002200 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 349520002201 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 349520002202 active site turn [active] 349520002203 phosphorylation site [posttranslational modification] 349520002204 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 349520002205 DinB family; Region: DinB; cl17821 349520002206 DinB superfamily; Region: DinB_2; pfam12867 349520002207 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 349520002208 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 349520002209 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 349520002210 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520002211 Coenzyme A binding pocket [chemical binding]; other site 349520002212 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 349520002213 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 349520002214 Catalytic site [active] 349520002215 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 349520002216 RNA/DNA hybrid binding site [nucleotide binding]; other site 349520002217 active site 349520002218 epoxyqueuosine reductase; Region: TIGR00276 349520002219 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 349520002220 HEAT repeats; Region: HEAT_2; pfam13646 349520002221 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 349520002222 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 349520002223 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 349520002224 DNA binding site [nucleotide binding] 349520002225 active site 349520002226 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 349520002227 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 349520002228 homodecamer interface [polypeptide binding]; other site 349520002229 GTP cyclohydrolase I; Provisional; Region: PLN03044 349520002230 active site 349520002231 putative catalytic site residues [active] 349520002232 zinc binding site [ion binding]; other site 349520002233 GTP-CH-I/GFRP interaction surface; other site 349520002234 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 349520002235 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 349520002236 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 349520002237 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 349520002238 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 349520002239 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 349520002240 nucleophilic elbow; other site 349520002241 catalytic triad; other site 349520002242 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 349520002243 Transcriptional regulator [Transcription]; Region: IclR; COG1414 349520002244 Bacterial transcriptional regulator; Region: IclR; pfam01614 349520002245 ThiC-associated domain; Region: ThiC-associated; pfam13667 349520002246 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 349520002247 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 349520002248 Uncharacterized conserved protein [Function unknown]; Region: COG1284 349520002249 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 349520002250 SdpI/YhfL protein family; Region: SdpI; pfam13630 349520002251 aconitate hydratase; Validated; Region: PRK09277 349520002252 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 349520002253 substrate binding site [chemical binding]; other site 349520002254 ligand binding site [chemical binding]; other site 349520002255 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 349520002256 substrate binding site [chemical binding]; other site 349520002257 Putative amidase domain; Region: Amidase_6; pfam12671 349520002258 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 349520002259 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 349520002260 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 349520002261 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 349520002262 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 349520002263 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 349520002264 active site 349520002265 dimerization interface [polypeptide binding]; other site 349520002266 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520002267 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 349520002268 dimerization interface [polypeptide binding]; other site 349520002269 Histidine kinase; Region: His_kinase; pfam06580 349520002270 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 349520002271 ATP binding site [chemical binding]; other site 349520002272 Mg2+ binding site [ion binding]; other site 349520002273 G-X-G motif; other site 349520002274 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 349520002275 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 349520002276 active site 349520002277 phosphorylation site [posttranslational modification] 349520002278 intermolecular recognition site; other site 349520002279 dimerization interface [polypeptide binding]; other site 349520002280 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520002281 PBP superfamily domain; Region: PBP_like_2; cl17296 349520002282 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520002283 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520002284 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520002285 dimer interface [polypeptide binding]; other site 349520002286 conserved gate region; other site 349520002287 putative PBP binding loops; other site 349520002288 ABC-ATPase subunit interface; other site 349520002289 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520002290 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520002291 dimer interface [polypeptide binding]; other site 349520002292 conserved gate region; other site 349520002293 putative PBP binding loops; other site 349520002294 ABC-ATPase subunit interface; other site 349520002295 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 349520002296 active site 349520002297 catalytic triad [active] 349520002298 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 349520002299 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 349520002300 active site 349520002301 zinc binding site [ion binding]; other site 349520002302 Anabaena sensory rhodopsin transducer; Region: ASRT; pfam07100 349520002303 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 349520002304 EamA-like transporter family; Region: EamA; pfam00892 349520002305 EamA-like transporter family; Region: EamA; pfam00892 349520002306 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 349520002307 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 349520002308 inhibitor-cofactor binding pocket; inhibition site 349520002309 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520002310 catalytic residue [active] 349520002311 Transcriptional regulator [Transcription]; Region: LytR; COG1316 349520002312 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 349520002313 ATP-binding cassette domain of an uncharacterized transporter similar in sequence to NatA; Region: ABC_NatA_like; cd03267 349520002314 Walker A/P-loop; other site 349520002315 ATP binding site [chemical binding]; other site 349520002316 Q-loop/lid; other site 349520002317 ABC transporter signature motif; other site 349520002318 Walker B; other site 349520002319 D-loop; other site 349520002320 H-loop/switch region; other site 349520002321 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 349520002322 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 349520002323 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 349520002324 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 349520002325 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 349520002326 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 349520002327 catalytic triad [active] 349520002328 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 349520002329 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 349520002330 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 349520002331 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 349520002332 GMP synthase; Reviewed; Region: guaA; PRK00074 349520002333 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 349520002334 AMP/PPi binding site [chemical binding]; other site 349520002335 candidate oxyanion hole; other site 349520002336 catalytic triad [active] 349520002337 potential glutamine specificity residues [chemical binding]; other site 349520002338 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 349520002339 ATP Binding subdomain [chemical binding]; other site 349520002340 Ligand Binding sites [chemical binding]; other site 349520002341 Dimerization subdomain; other site 349520002342 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 349520002343 conserved cys residue [active] 349520002344 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349520002345 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349520002346 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520002347 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520002348 LysR substrate binding domain; Region: LysR_substrate; pfam03466 349520002349 dimerization interface [polypeptide binding]; other site 349520002350 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 349520002351 active site 349520002352 catalytic triad [active] 349520002353 oxyanion hole [active] 349520002354 Transcriptional regulators [Transcription]; Region: MarR; COG1846 349520002355 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 349520002356 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 349520002357 putative NAD(P) binding site [chemical binding]; other site 349520002358 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 349520002359 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 349520002360 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 349520002361 dimer interface [polypeptide binding]; other site 349520002362 active site 349520002363 CoA binding pocket [chemical binding]; other site 349520002364 DNA topoisomerase III; Provisional; Region: PRK07726 349520002365 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 349520002366 active site 349520002367 putative interdomain interaction site [polypeptide binding]; other site 349520002368 putative metal-binding site [ion binding]; other site 349520002369 putative nucleotide binding site [chemical binding]; other site 349520002370 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 349520002371 domain I; other site 349520002372 DNA binding groove [nucleotide binding] 349520002373 phosphate binding site [ion binding]; other site 349520002374 domain II; other site 349520002375 domain III; other site 349520002376 nucleotide binding site [chemical binding]; other site 349520002377 catalytic site [active] 349520002378 domain IV; other site 349520002379 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 349520002380 active site 349520002381 homotetramer interface [polypeptide binding]; other site 349520002382 homodimer interface [polypeptide binding]; other site 349520002383 Protein of unknown function (DUF4023); Region: DUF4023; pfam13215 349520002384 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 349520002385 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 349520002386 Ligand Binding Site [chemical binding]; other site 349520002387 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 349520002388 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 349520002389 ATP-grasp domain; Region: ATP-grasp; pfam02222 349520002390 adenylosuccinate lyase; Provisional; Region: PRK07492 349520002391 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 349520002392 tetramer interface [polypeptide binding]; other site 349520002393 active site 349520002394 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 349520002395 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 349520002396 ATP binding site [chemical binding]; other site 349520002397 active site 349520002398 substrate binding site [chemical binding]; other site 349520002399 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 349520002400 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 349520002401 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 349520002402 putative active site [active] 349520002403 catalytic triad [active] 349520002404 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 349520002405 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 349520002406 dimerization interface [polypeptide binding]; other site 349520002407 ATP binding site [chemical binding]; other site 349520002408 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 349520002409 dimerization interface [polypeptide binding]; other site 349520002410 ATP binding site [chemical binding]; other site 349520002411 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 349520002412 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 349520002413 active site 349520002414 tetramer interface [polypeptide binding]; other site 349520002415 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349520002416 active site 349520002417 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 349520002418 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 349520002419 dimerization interface [polypeptide binding]; other site 349520002420 putative ATP binding site [chemical binding]; other site 349520002421 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 349520002422 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 349520002423 active site 349520002424 substrate binding site [chemical binding]; other site 349520002425 cosubstrate binding site; other site 349520002426 catalytic site [active] 349520002427 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 349520002428 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 349520002429 purine monophosphate binding site [chemical binding]; other site 349520002430 dimer interface [polypeptide binding]; other site 349520002431 putative catalytic residues [active] 349520002432 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 349520002433 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 349520002434 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 349520002435 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 349520002436 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 349520002437 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520002438 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520002439 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 349520002440 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349520002441 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 349520002442 substrate binding pocket [chemical binding]; other site 349520002443 membrane-bound complex binding site; other site 349520002444 hinge residues; other site 349520002445 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349520002446 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520002447 dimer interface [polypeptide binding]; other site 349520002448 conserved gate region; other site 349520002449 putative PBP binding loops; other site 349520002450 ABC-ATPase subunit interface; other site 349520002451 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349520002452 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 349520002453 Walker A/P-loop; other site 349520002454 ATP binding site [chemical binding]; other site 349520002455 Q-loop/lid; other site 349520002456 ABC transporter signature motif; other site 349520002457 Walker B; other site 349520002458 D-loop; other site 349520002459 H-loop/switch region; other site 349520002460 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 349520002461 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 349520002462 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 349520002463 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 349520002464 ABC-ATPase subunit interface; other site 349520002465 dimer interface [polypeptide binding]; other site 349520002466 putative PBP binding regions; other site 349520002467 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 349520002468 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 349520002469 ABC-ATPase subunit interface; other site 349520002470 dimer interface [polypeptide binding]; other site 349520002471 putative PBP binding regions; other site 349520002472 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 349520002473 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 349520002474 siderophore binding site; other site 349520002475 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 349520002476 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 349520002477 active site 349520002478 phosphorylation site [posttranslational modification] 349520002479 intermolecular recognition site; other site 349520002480 dimerization interface [polypeptide binding]; other site 349520002481 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 349520002482 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 349520002483 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 349520002484 ATP binding site [chemical binding]; other site 349520002485 Mg2+ binding site [ion binding]; other site 349520002486 G-X-G motif; other site 349520002487 Uncharacterized conserved protein [Function unknown]; Region: COG1359 349520002488 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 349520002489 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349520002490 active site 349520002491 catalytic tetrad [active] 349520002492 Predicted integral membrane protein [Function unknown]; Region: COG5658 349520002493 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 349520002494 SdpI/YhfL protein family; Region: SdpI; pfam13630 349520002495 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 349520002496 dimerization interface [polypeptide binding]; other site 349520002497 putative DNA binding site [nucleotide binding]; other site 349520002498 putative Zn2+ binding site [ion binding]; other site 349520002499 putative hydrolase; Provisional; Region: PRK11460 349520002500 Predicted esterase [General function prediction only]; Region: COG0400 349520002501 Secretory lipase; Region: LIP; pfam03583 349520002502 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830 349520002503 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520002504 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520002505 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520002506 dimer interface [polypeptide binding]; other site 349520002507 conserved gate region; other site 349520002508 putative PBP binding loops; other site 349520002509 ABC-ATPase subunit interface; other site 349520002510 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520002511 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520002512 dimer interface [polypeptide binding]; other site 349520002513 conserved gate region; other site 349520002514 putative PBP binding loops; other site 349520002515 ABC-ATPase subunit interface; other site 349520002516 threonine dehydratase; Validated; Region: PRK08639 349520002517 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 349520002518 tetramer interface [polypeptide binding]; other site 349520002519 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520002520 catalytic residue [active] 349520002521 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 349520002522 putative Ile/Val binding site [chemical binding]; other site 349520002523 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 349520002524 substrate binding site [chemical binding]; other site 349520002525 active site 349520002526 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 349520002527 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 349520002528 ABC-ATPase subunit interface; other site 349520002529 dimer interface [polypeptide binding]; other site 349520002530 putative PBP binding regions; other site 349520002531 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 349520002532 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 349520002533 ABC-ATPase subunit interface; other site 349520002534 dimer interface [polypeptide binding]; other site 349520002535 putative PBP binding regions; other site 349520002536 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 349520002537 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 349520002538 intersubunit interface [polypeptide binding]; other site 349520002539 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 349520002540 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; cd00741 349520002541 nucleophilic elbow; other site 349520002542 catalytic triad; other site 349520002543 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 349520002544 putative active site [active] 349520002545 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 349520002546 metal binding site [ion binding]; metal-binding site 349520002547 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 349520002548 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 349520002549 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 349520002550 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349520002551 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 349520002552 substrate binding pocket [chemical binding]; other site 349520002553 membrane-bound complex binding site; other site 349520002554 hinge residues; other site 349520002555 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349520002556 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520002557 dimer interface [polypeptide binding]; other site 349520002558 conserved gate region; other site 349520002559 putative PBP binding loops; other site 349520002560 ABC-ATPase subunit interface; other site 349520002561 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349520002562 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 349520002563 Walker A/P-loop; other site 349520002564 ATP binding site [chemical binding]; other site 349520002565 Q-loop/lid; other site 349520002566 ABC transporter signature motif; other site 349520002567 Walker B; other site 349520002568 D-loop; other site 349520002569 H-loop/switch region; other site 349520002570 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 349520002571 Uncharacterized bacterial subfamily of the Thermotoga maritima CorA-like family; Region: TmCorA-like_u2; cd12831 349520002572 oligomer interface [polypeptide binding]; other site 349520002573 metal binding site [ion binding]; metal-binding site 349520002574 metal binding site [ion binding]; metal-binding site 349520002575 putative Cl binding site [ion binding]; other site 349520002576 aspartate ring; other site 349520002577 basic sphincter; other site 349520002578 hydrophobic gate; other site 349520002579 periplasmic entrance; other site 349520002580 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4496 349520002581 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 349520002582 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 349520002583 putative active site [active] 349520002584 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 349520002585 putative active site [active] 349520002586 putative lipid kinase; Reviewed; Region: PRK13337 349520002587 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 349520002588 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 349520002589 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 349520002590 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 349520002591 S-adenosylmethionine binding site [chemical binding]; other site 349520002592 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 349520002593 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 349520002594 ATP binding site [chemical binding]; other site 349520002595 putative Mg++ binding site [ion binding]; other site 349520002596 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 349520002597 nucleotide binding region [chemical binding]; other site 349520002598 ATP-binding site [chemical binding]; other site 349520002599 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 349520002600 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 349520002601 DNA methylase; Region: N6_N4_Mtase; pfam01555 349520002602 DNA methylase; Region: N6_N4_Mtase; cl17433 349520002603 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 349520002604 ATP binding site [chemical binding]; other site 349520002605 putative Mg++ binding site [ion binding]; other site 349520002606 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 349520002607 ParB-like nuclease domain; Region: ParBc; pfam02195 349520002608 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 349520002609 DNA methylase; Region: N6_N4_Mtase; pfam01555 349520002610 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 349520002611 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 349520002612 active site 349520002613 DNA binding site [nucleotide binding] 349520002614 Int/Topo IB signature motif; other site 349520002615 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 349520002616 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349520002617 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 349520002618 active site 349520002619 metal binding site [ion binding]; metal-binding site 349520002620 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 349520002621 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 349520002622 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520002623 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520002624 DNA-binding site [nucleotide binding]; DNA binding site 349520002625 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 349520002626 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 349520002627 NADP binding site [chemical binding]; other site 349520002628 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 349520002629 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 349520002630 catalytic residues [active] 349520002631 catalytic nucleophile [active] 349520002632 Recombinase; Region: Recombinase; pfam07508 349520002633 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 349520002634 Immunity protein Imm3; Region: Imm3; pfam14425 349520002635 Immunity protein Imm3; Region: Imm3; pfam14425 349520002636 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 349520002637 The BURPS668_1122 family of deaminases; Region: Toxin-deaminase; pfam14424 349520002638 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520002639 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520002640 Peptidases of the G1 family and homologs that might lack peptidase activity; Region: Peptidase_G1_like; cl03371 349520002641 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 349520002642 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 349520002643 FMN binding site [chemical binding]; other site 349520002644 active site 349520002645 catalytic residues [active] 349520002646 substrate binding site [chemical binding]; other site 349520002647 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520002648 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520002649 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 349520002650 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 349520002651 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 349520002652 1,3-beta-galactosyl-N-acetylhexosamine phosphorylase; Region: TIGR02336 349520002653 Plasmodium subtelomeric family (PST-A); Region: PST-A; TIGR01607 349520002654 Predicted transcriptional regulator [Transcription]; Region: COG2378 349520002655 HTH domain; Region: HTH_11; pfam08279 349520002656 WYL domain; Region: WYL; pfam13280 349520002657 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 349520002658 dimer interface [polypeptide binding]; other site 349520002659 Uncharacterized conserved protein [Function unknown]; Region: COG0397 349520002660 hypothetical protein; Validated; Region: PRK00029 349520002661 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 349520002662 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 349520002663 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 349520002664 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 349520002665 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 349520002666 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 349520002667 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 349520002668 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 349520002669 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 349520002670 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349520002671 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349520002672 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 349520002673 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_7; cd06316 349520002674 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 349520002675 putative ligand binding site [chemical binding]; other site 349520002676 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 349520002677 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 349520002678 Metal-binding active site; metal-binding site 349520002679 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520002680 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520002681 DNA binding site [nucleotide binding] 349520002682 domain linker motif; other site 349520002683 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 349520002684 dimerization interface [polypeptide binding]; other site 349520002685 ligand binding site [chemical binding]; other site 349520002686 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 349520002687 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 349520002688 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 349520002689 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 349520002690 Walker A/P-loop; other site 349520002691 ATP binding site [chemical binding]; other site 349520002692 Q-loop/lid; other site 349520002693 ABC transporter signature motif; other site 349520002694 Walker B; other site 349520002695 D-loop; other site 349520002696 H-loop/switch region; other site 349520002697 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 349520002698 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 349520002699 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349520002700 TM-ABC transporter signature motif; other site 349520002701 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349520002702 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349520002703 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 349520002704 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 349520002705 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 349520002706 L-threonine dehydrogenase (TDH)-like; Region: THR_DH_like; cd08239 349520002707 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 349520002708 putative NAD(P) binding site [chemical binding]; other site 349520002709 catalytic Zn binding site [ion binding]; other site 349520002710 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 349520002711 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 349520002712 DNA interaction; other site 349520002713 Metal-binding active site; metal-binding site 349520002714 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 349520002715 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 349520002716 putative substrate translocation pore; other site 349520002717 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520002718 Coenzyme A binding pocket [chemical binding]; other site 349520002719 putative transport protein YifK; Provisional; Region: PRK10746 349520002720 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 349520002721 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 349520002722 putative NAD(P) binding site [chemical binding]; other site 349520002723 putative substrate binding site [chemical binding]; other site 349520002724 catalytic Zn binding site [ion binding]; other site 349520002725 structural Zn binding site [ion binding]; other site 349520002726 dimer interface [polypeptide binding]; other site 349520002727 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 349520002728 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 349520002729 DNA binding residues [nucleotide binding] 349520002730 putative dimer interface [polypeptide binding]; other site 349520002731 S-layer homology domain; Region: SLH; pfam00395 349520002732 S-layer homology domain; Region: SLH; pfam00395 349520002733 Domain of Unknown Function with PDB structure (DUF3863); Region: DUF3863; pfam12979 349520002734 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 349520002735 dimer interface [polypeptide binding]; other site 349520002736 FMN binding site [chemical binding]; other site 349520002737 Predicted transcriptional regulators [Transcription]; Region: COG1733 349520002738 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 349520002739 putative transposase OrfB; Reviewed; Region: PHA02517 349520002740 HTH-like domain; Region: HTH_21; pfam13276 349520002741 Integrase core domain; Region: rve; pfam00665 349520002742 Integrase core domain; Region: rve_2; pfam13333 349520002743 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349520002744 Helix-turn-helix domain; Region: HTH_28; pfam13518 349520002745 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 349520002746 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 349520002747 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 349520002748 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 349520002749 homodimer interface [polypeptide binding]; other site 349520002750 NADP binding site [chemical binding]; other site 349520002751 substrate binding site [chemical binding]; other site 349520002752 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 349520002753 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 349520002754 putative di-iron ligands [ion binding]; other site 349520002755 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 349520002756 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 349520002757 Histidine kinase; Region: HisKA_3; pfam07730 349520002758 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 349520002759 ATP binding site [chemical binding]; other site 349520002760 Mg2+ binding site [ion binding]; other site 349520002761 G-X-G motif; other site 349520002762 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349520002763 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 349520002764 active site 349520002765 phosphorylation site [posttranslational modification] 349520002766 intermolecular recognition site; other site 349520002767 dimerization interface [polypeptide binding]; other site 349520002768 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 349520002769 DNA binding residues [nucleotide binding] 349520002770 dimerization interface [polypeptide binding]; other site 349520002771 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 349520002772 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 349520002773 Substrate-binding site [chemical binding]; other site 349520002774 Substrate specificity [chemical binding]; other site 349520002775 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 349520002776 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 349520002777 Substrate-binding site [chemical binding]; other site 349520002778 Substrate specificity [chemical binding]; other site 349520002779 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349520002780 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349520002781 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 349520002782 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349520002783 active site 349520002784 metal binding site [ion binding]; metal-binding site 349520002785 Uncharacterized conserved protein [Function unknown]; Region: RtcB; COG1690 349520002786 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 349520002787 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 349520002788 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 349520002789 shikimate binding site; other site 349520002790 NAD(P) binding site [chemical binding]; other site 349520002791 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 349520002792 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520002793 putative substrate translocation pore; other site 349520002794 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520002795 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520002796 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 349520002797 putative dimerization interface [polypeptide binding]; other site 349520002798 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 349520002799 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520002800 putative substrate translocation pore; other site 349520002801 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 349520002802 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 349520002803 active site 349520002804 catalytic residue [active] 349520002805 dimer interface [polypeptide binding]; other site 349520002806 shikimate kinase; Reviewed; Region: aroK; PRK00131 349520002807 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 349520002808 ADP binding site [chemical binding]; other site 349520002809 magnesium binding site [ion binding]; other site 349520002810 putative shikimate binding site; other site 349520002811 Pectate lyase; Region: Pectate_lyase; pfam03211 349520002812 Phosphotransferase enzyme family; Region: APH; pfam01636 349520002813 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 349520002814 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 349520002815 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349520002816 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 349520002817 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 349520002818 putative substrate translocation pore; other site 349520002819 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 349520002820 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 349520002821 dimer interface [polypeptide binding]; other site 349520002822 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520002823 catalytic residue [active] 349520002824 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 349520002825 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349520002826 active site 349520002827 catalytic tetrad [active] 349520002828 WYL domain; Region: WYL; pfam13280 349520002829 Predicted transcriptional regulator [Transcription]; Region: COG2378 349520002830 WYL domain; Region: WYL; pfam13280 349520002831 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 349520002832 RNA repair, ligase-Pnkp-associating, region of Hen1; Region: Hen1_L; pfam12623 349520002833 3' terminal RNA ribose 2'-O-methyltransferase Hen1; Region: bacter_Hen1; TIGR04074 349520002834 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 349520002835 polynucleotide kinase-phosphatase; Region: bacter_Pnkp; TIGR04075 349520002836 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 349520002837 active site 349520002838 metal binding site [ion binding]; metal-binding site 349520002839 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 349520002840 active site 349520002841 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 349520002842 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 349520002843 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 349520002844 Walker A/P-loop; other site 349520002845 ATP binding site [chemical binding]; other site 349520002846 Q-loop/lid; other site 349520002847 ABC transporter signature motif; other site 349520002848 Walker B; other site 349520002849 D-loop; other site 349520002850 H-loop/switch region; other site 349520002851 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 349520002852 Walker A/P-loop; other site 349520002853 ATP binding site [chemical binding]; other site 349520002854 Q-loop/lid; other site 349520002855 ABC transporter signature motif; other site 349520002856 Walker B; other site 349520002857 D-loop; other site 349520002858 H-loop/switch region; other site 349520002859 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 349520002860 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 349520002861 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 349520002862 Walker A/P-loop; other site 349520002863 ATP binding site [chemical binding]; other site 349520002864 Q-loop/lid; other site 349520002865 ABC transporter signature motif; other site 349520002866 Walker B; other site 349520002867 D-loop; other site 349520002868 H-loop/switch region; other site 349520002869 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520002870 dimer interface [polypeptide binding]; other site 349520002871 conserved gate region; other site 349520002872 ABC-ATPase subunit interface; other site 349520002873 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 349520002874 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 349520002875 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 349520002876 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520002877 Coenzyme A binding pocket [chemical binding]; other site 349520002878 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349520002879 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349520002880 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 349520002881 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 349520002882 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 349520002883 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 349520002884 S-layer homology domain; Region: SLH; pfam00395 349520002885 S-layer homology domain; Region: SLH; pfam00395 349520002886 S-layer homology domain; Region: SLH; pfam00395 349520002887 S-layer homology domain; Region: SLH; pfam00395 349520002888 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 349520002889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 349520002890 hypothetical protein; Provisional; Region: PRK13660 349520002891 YvrJ protein family; Region: YvrJ; pfam12841 349520002892 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 349520002893 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 349520002894 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 349520002895 active site 349520002896 motif I; other site 349520002897 motif II; other site 349520002898 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 349520002899 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 349520002900 YcxB-like protein; Region: YcxB; pfam14317 349520002901 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 349520002902 tellurite resistance protein terB; Region: terB; cd07176 349520002903 putative metal binding site [ion binding]; other site 349520002904 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 349520002905 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 349520002906 putative metal binding site [ion binding]; other site 349520002907 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 349520002908 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 349520002909 putative metal binding site [ion binding]; other site 349520002910 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 349520002911 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 349520002912 putative metal binding site [ion binding]; other site 349520002913 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 349520002914 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 349520002915 putative metal binding site [ion binding]; other site 349520002916 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 349520002917 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 349520002918 putative metal binding site [ion binding]; other site 349520002919 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 349520002920 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 349520002921 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349520002922 active site 349520002923 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 349520002924 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 349520002925 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 349520002926 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 349520002927 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 349520002928 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 349520002929 zinc binding site [ion binding]; other site 349520002930 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 349520002931 metal ion-dependent adhesion site (MIDAS); other site 349520002932 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 349520002933 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 349520002934 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 349520002935 peptide binding site [polypeptide binding]; other site 349520002936 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 349520002937 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 349520002938 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520002939 dimer interface [polypeptide binding]; other site 349520002940 conserved gate region; other site 349520002941 putative PBP binding loops; other site 349520002942 ABC-ATPase subunit interface; other site 349520002943 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349520002944 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520002945 dimer interface [polypeptide binding]; other site 349520002946 conserved gate region; other site 349520002947 putative PBP binding loops; other site 349520002948 ABC-ATPase subunit interface; other site 349520002949 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349520002950 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 349520002951 substrate binding pocket [chemical binding]; other site 349520002952 membrane-bound complex binding site; other site 349520002953 hinge residues; other site 349520002954 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520002955 dimer interface [polypeptide binding]; other site 349520002956 conserved gate region; other site 349520002957 putative PBP binding loops; other site 349520002958 ABC-ATPase subunit interface; other site 349520002959 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349520002960 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 349520002961 Walker A/P-loop; other site 349520002962 ATP binding site [chemical binding]; other site 349520002963 Q-loop/lid; other site 349520002964 ABC transporter signature motif; other site 349520002965 Walker B; other site 349520002966 D-loop; other site 349520002967 H-loop/switch region; other site 349520002968 Intracellular septation protein A; Region: IspA; cl01098 349520002969 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520002970 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520002971 Glycosyl hydrolases family 11; Region: Glyco_hydro_11; pfam00457 349520002972 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 349520002973 Protein of unknown function (DUF3626); Region: DUF3626; pfam12294 349520002974 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349520002975 Protein of unknown function (DUF3626); Region: DUF3626; pfam12294 349520002976 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 349520002977 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 349520002978 tetracycline repressor protein TetR; Provisional; Region: PRK13756 349520002979 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520002980 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 349520002981 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 349520002982 intermolecular salt bridges; other site 349520002983 calcium mediated ligand binding site; other site 349520002984 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 349520002985 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 349520002986 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520002987 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349520002988 Transposase; Region: HTH_Tnp_1; cl17663 349520002989 putative transposase OrfB; Reviewed; Region: PHA02517 349520002990 HTH-like domain; Region: HTH_21; pfam13276 349520002991 Integrase core domain; Region: rve; pfam00665 349520002992 Integrase core domain; Region: rve_2; pfam13333 349520002993 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 349520002994 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 349520002995 metal binding site [ion binding]; metal-binding site 349520002996 active site 349520002997 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520002998 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520002999 DNA binding site [nucleotide binding] 349520003000 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 349520003001 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 349520003002 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 349520003003 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 349520003004 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 349520003005 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 349520003006 active site 349520003007 substrate binding [chemical binding]; other site 349520003008 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 349520003009 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 349520003010 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520003011 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349520003012 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520003013 Walker A/P-loop; other site 349520003014 ATP binding site [chemical binding]; other site 349520003015 Q-loop/lid; other site 349520003016 ABC transporter signature motif; other site 349520003017 Walker B; other site 349520003018 D-loop; other site 349520003019 H-loop/switch region; other site 349520003020 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349520003021 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520003022 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 349520003023 Walker A/P-loop; other site 349520003024 ATP binding site [chemical binding]; other site 349520003025 Q-loop/lid; other site 349520003026 ABC transporter signature motif; other site 349520003027 Walker B; other site 349520003028 D-loop; other site 349520003029 H-loop/switch region; other site 349520003030 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 349520003031 classical (c) SDRs; Region: SDR_c; cd05233 349520003032 NAD(P) binding site [chemical binding]; other site 349520003033 active site 349520003034 Integrase core domain; Region: rve; pfam00665 349520003035 Integrase core domain; Region: rve_3; pfam13683 349520003036 short chain dehydrogenase; Provisional; Region: PRK06701 349520003037 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520003038 NAD(P) binding site [chemical binding]; other site 349520003039 active site 349520003040 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 349520003041 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 349520003042 DNA binding residues [nucleotide binding] 349520003043 putative dimer interface [polypeptide binding]; other site 349520003044 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 349520003045 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349520003046 active site 349520003047 catalytic tetrad [active] 349520003048 Cupin domain; Region: Cupin_2; pfam07883 349520003049 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 349520003050 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520003051 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520003052 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 349520003053 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 349520003054 putative substrate translocation pore; other site 349520003055 Response regulator receiver domain; Region: Response_reg; pfam00072 349520003056 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 349520003057 active site 349520003058 phosphorylation site [posttranslational modification] 349520003059 intermolecular recognition site; other site 349520003060 dimerization interface [polypeptide binding]; other site 349520003061 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520003062 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520003063 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520003064 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 349520003065 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 349520003066 dimerization interface [polypeptide binding]; other site 349520003067 Histidine kinase; Region: His_kinase; pfam06580 349520003068 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 349520003069 ATP binding site [chemical binding]; other site 349520003070 Mg2+ binding site [ion binding]; other site 349520003071 G-X-G motif; other site 349520003072 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 349520003073 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 349520003074 ligand binding site [chemical binding]; other site 349520003075 alpha-galactosidase; Provisional; Region: PRK15076 349520003076 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 349520003077 NAD binding site [chemical binding]; other site 349520003078 sugar binding site [chemical binding]; other site 349520003079 divalent metal binding site [ion binding]; other site 349520003080 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 349520003081 dimer interface [polypeptide binding]; other site 349520003082 Cellobiohydrolase A (1,4-beta-cellobiosidase A) [Carbohydrate transport and metabolism]; Region: CelA; COG5297 349520003083 Glycosyl hydrolases family 6; Region: Glyco_hydro_6; pfam01341 349520003084 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 349520003085 Interdomain contacts; other site 349520003086 Cytokine receptor motif; other site 349520003087 Cellulose binding domain; Region: CBM_3; pfam00942 349520003088 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 349520003089 active site 349520003090 PAS domain S-box; Region: sensory_box; TIGR00229 349520003091 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 349520003092 putative active site [active] 349520003093 heme pocket [chemical binding]; other site 349520003094 PAS domain S-box; Region: sensory_box; TIGR00229 349520003095 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 349520003096 putative active site [active] 349520003097 heme pocket [chemical binding]; other site 349520003098 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 349520003099 PAS fold; Region: PAS_3; pfam08447 349520003100 putative active site [active] 349520003101 heme pocket [chemical binding]; other site 349520003102 PAS domain S-box; Region: sensory_box; TIGR00229 349520003103 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 349520003104 putative active site [active] 349520003105 heme pocket [chemical binding]; other site 349520003106 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 349520003107 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 349520003108 putative active site [active] 349520003109 heme pocket [chemical binding]; other site 349520003110 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 349520003111 dimer interface [polypeptide binding]; other site 349520003112 phosphorylation site [posttranslational modification] 349520003113 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 349520003114 ATP binding site [chemical binding]; other site 349520003115 Mg2+ binding site [ion binding]; other site 349520003116 G-X-G motif; other site 349520003117 Predicted transcriptional regulators [Transcription]; Region: COG1725 349520003118 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520003119 DNA-binding site [nucleotide binding]; DNA binding site 349520003120 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 349520003121 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 349520003122 Walker A/P-loop; other site 349520003123 ATP binding site [chemical binding]; other site 349520003124 Q-loop/lid; other site 349520003125 ABC transporter signature motif; other site 349520003126 Walker B; other site 349520003127 D-loop; other site 349520003128 H-loop/switch region; other site 349520003129 Methyltransferase domain; Region: Methyltransf_11; pfam08241 349520003130 PBP superfamily domain; Region: PBP_like_2; cl17296 349520003131 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 349520003132 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 349520003133 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349520003134 active site 349520003135 catalytic tetrad [active] 349520003136 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 349520003137 active site 349520003138 SUMO-1 interface [polypeptide binding]; other site 349520003139 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 349520003140 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 349520003141 hexamer interface [polypeptide binding]; other site 349520003142 ligand binding site [chemical binding]; other site 349520003143 putative active site [active] 349520003144 NAD(P) binding site [chemical binding]; other site 349520003145 DRTGG domain; Region: DRTGG; pfam07085 349520003146 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 349520003147 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 349520003148 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520003149 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 349520003150 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 349520003151 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 349520003152 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 349520003153 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_2; cd01834 349520003154 active site 349520003155 catalytic triad [active] 349520003156 oxyanion hole [active] 349520003157 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 349520003158 Domain of unknown function DUF21; Region: DUF21; pfam01595 349520003159 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 349520003160 Transporter associated domain; Region: CorC_HlyC; smart01091 349520003161 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 349520003162 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 349520003163 dimerization interface [polypeptide binding]; other site 349520003164 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520003165 dimer interface [polypeptide binding]; other site 349520003166 putative CheW interface [polypeptide binding]; other site 349520003167 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 349520003168 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 349520003169 classical (c) SDRs; Region: SDR_c; cd05233 349520003170 NAD(P) binding site [chemical binding]; other site 349520003171 active site 349520003172 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 349520003173 MgtC family; Region: MgtC; pfam02308 349520003174 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 349520003175 active site 349520003176 Protein of unknown function (DUF3886); Region: DUF3886; pfam13025 349520003177 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 349520003178 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 349520003179 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520003180 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 349520003181 EamA-like transporter family; Region: EamA; pfam00892 349520003182 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 349520003183 EamA-like transporter family; Region: EamA; pfam00892 349520003184 Predicted transcriptional regulators [Transcription]; Region: COG1378 349520003185 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 349520003186 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 349520003187 C-terminal domain interface [polypeptide binding]; other site 349520003188 sugar binding site [chemical binding]; other site 349520003189 Protein of unknown function (DUF1593); Region: DUF1593; pfam07632 349520003190 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 349520003191 Chorismate mutase type II; Region: CM_2; cl00693 349520003192 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 349520003193 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520003194 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 349520003195 dimer interface [polypeptide binding]; other site 349520003196 phosphorylation site [posttranslational modification] 349520003197 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 349520003198 ATP binding site [chemical binding]; other site 349520003199 Mg2+ binding site [ion binding]; other site 349520003200 G-X-G motif; other site 349520003201 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 349520003202 Catalytic NodB homology domain of Streptomyces lividans acetylxylan esterase and its bacterial homologs; Region: CE4_SlAXE_like; cd10953 349520003203 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 349520003204 NodB motif; other site 349520003205 active site 349520003206 catalytic site [active] 349520003207 Zn binding site [ion binding]; other site 349520003208 dimer interface [polypeptide binding]; other site 349520003209 Carbohydrate Binding Module families 36 (CBM36) and 6 (CBM6); appended mainly to glycoside hydrolase family 11 (GH11) domains; xylan binding; Region: CBM6_36_xylanase-like; cd04078 349520003210 Ca binding site [ion binding]; other site 349520003211 Ca binding site (active) [ion binding]; other site 349520003212 ligand binding site [chemical binding]; other site 349520003213 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 349520003214 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 349520003215 conserved cys residue [active] 349520003216 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 349520003217 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 349520003218 non-specific DNA binding site [nucleotide binding]; other site 349520003219 salt bridge; other site 349520003220 sequence-specific DNA binding site [nucleotide binding]; other site 349520003221 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 349520003222 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 349520003223 Acyltransferase family; Region: Acyl_transf_3; pfam01757 349520003224 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 349520003225 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 349520003226 ligand binding site [chemical binding]; other site 349520003227 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 349520003228 Cache domain; Region: Cache_1; pfam02743 349520003229 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 349520003230 dimerization interface [polypeptide binding]; other site 349520003231 Histidine kinase; Region: His_kinase; pfam06580 349520003232 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 349520003233 ATP binding site [chemical binding]; other site 349520003234 Mg2+ binding site [ion binding]; other site 349520003235 G-X-G motif; other site 349520003236 Response regulator receiver domain; Region: Response_reg; pfam00072 349520003237 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 349520003238 active site 349520003239 phosphorylation site [posttranslational modification] 349520003240 intermolecular recognition site; other site 349520003241 dimerization interface [polypeptide binding]; other site 349520003242 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520003243 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520003244 hydroxylamine reductase; Provisional; Region: PRK12310 349520003245 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 349520003246 ACS interaction site; other site 349520003247 CODH interaction site; other site 349520003248 metal cluster binding site [ion binding]; other site 349520003249 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 349520003250 non-specific DNA binding site [nucleotide binding]; other site 349520003251 salt bridge; other site 349520003252 sequence-specific DNA binding site [nucleotide binding]; other site 349520003253 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from archaea and bacteria; Region: NTP-PPase_COG4997; cd11532 349520003254 metal binding site [ion binding]; metal-binding site 349520003255 Restriction endonuclease; Region: Mrr_cat; pfam04471 349520003256 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 349520003257 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349520003258 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349520003259 potential frameshift: common BLAST hit: gi|91787947|ref|YP_548899.1| KAP P-loop 349520003260 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 349520003261 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 349520003262 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 349520003263 putative ligand binding site [chemical binding]; other site 349520003264 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 349520003265 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 349520003266 Walker A/P-loop; other site 349520003267 ATP binding site [chemical binding]; other site 349520003268 Q-loop/lid; other site 349520003269 ABC transporter signature motif; other site 349520003270 Walker B; other site 349520003271 D-loop; other site 349520003272 H-loop/switch region; other site 349520003273 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 349520003274 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349520003275 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 349520003276 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 349520003277 TM-ABC transporter signature motif; other site 349520003278 short chain dehydrogenase; Provisional; Region: PRK06701 349520003279 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 349520003280 NAD binding site [chemical binding]; other site 349520003281 metal binding site [ion binding]; metal-binding site 349520003282 active site 349520003283 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 349520003284 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 349520003285 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 349520003286 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 349520003287 EcsC protein family; Region: EcsC; pfam12787 349520003288 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 349520003289 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520003290 putative substrate translocation pore; other site 349520003291 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 349520003292 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 349520003293 active site 349520003294 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 349520003295 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 349520003296 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 349520003297 FeS/SAM binding site; other site 349520003298 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 349520003299 active site 349520003300 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 349520003301 Ligand Binding Site [chemical binding]; other site 349520003302 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 349520003303 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 349520003304 Predicted transcriptional regulator [Transcription]; Region: COG2378 349520003305 HTH domain; Region: HTH_11; pfam08279 349520003306 WYL domain; Region: WYL; pfam13280 349520003307 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 349520003308 active site 349520003309 catalytic site [active] 349520003310 substrate binding site [chemical binding]; other site 349520003311 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 349520003312 Staphylococcus aureus SA0022 and related proteins, N-terminal metallophosphatase domain; Region: MPP_SA0022_N; cd07408 349520003313 putative active site [active] 349520003314 putative metal binding site [ion binding]; other site 349520003315 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 349520003316 Domain of unknown function (DUF955); Region: DUF955; pfam06114 349520003317 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 349520003318 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 349520003319 non-specific DNA binding site [nucleotide binding]; other site 349520003320 salt bridge; other site 349520003321 sequence-specific DNA binding site [nucleotide binding]; other site 349520003322 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 349520003323 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 349520003324 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 349520003325 Phage XkdN-like protein; Region: XkdN; pfam08890 349520003326 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 349520003327 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349520003328 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 349520003329 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 349520003330 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 349520003331 Holin family; Region: Phage_holin_4; pfam05105 349520003332 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cd00599 349520003333 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 349520003334 active site 349520003335 Thioesterase domain; Region: Thioesterase; pfam00975 349520003336 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 349520003337 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 349520003338 peptide binding site [polypeptide binding]; other site 349520003339 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349520003340 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520003341 dimer interface [polypeptide binding]; other site 349520003342 conserved gate region; other site 349520003343 putative PBP binding loops; other site 349520003344 ABC-ATPase subunit interface; other site 349520003345 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 349520003346 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 349520003347 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520003348 dimer interface [polypeptide binding]; other site 349520003349 conserved gate region; other site 349520003350 putative PBP binding loops; other site 349520003351 ABC-ATPase subunit interface; other site 349520003352 dGTP triphosphohydrolase [Nucleotide transport and metabolism]; Region: Dgt; COG0232 349520003353 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 349520003354 Zn2+ binding site [ion binding]; other site 349520003355 Mg2+ binding site [ion binding]; other site 349520003356 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 349520003357 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 349520003358 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 349520003359 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 349520003360 THUMP domain, predicted to bind RNA; Region: THUMP; cl12076 349520003361 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 349520003362 S-adenosylmethionine binding site [chemical binding]; other site 349520003363 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 349520003364 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 349520003365 NAD binding site [chemical binding]; other site 349520003366 ligand binding site [chemical binding]; other site 349520003367 catalytic site [active] 349520003368 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 349520003369 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 349520003370 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 349520003371 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 349520003372 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 349520003373 metal-dependent hydrolase; Provisional; Region: PRK00685 349520003374 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 349520003375 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 349520003376 active site 349520003377 dimer interface [polypeptide binding]; other site 349520003378 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 349520003379 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 349520003380 active site 349520003381 FMN binding site [chemical binding]; other site 349520003382 substrate binding site [chemical binding]; other site 349520003383 3Fe-4S cluster binding site [ion binding]; other site 349520003384 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 349520003385 domain interface; other site 349520003386 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 349520003387 Histidine kinase; Region: HisKA_3; pfam07730 349520003388 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 349520003389 ATP binding site [chemical binding]; other site 349520003390 Mg2+ binding site [ion binding]; other site 349520003391 G-X-G motif; other site 349520003392 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349520003393 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 349520003394 active site 349520003395 phosphorylation site [posttranslational modification] 349520003396 intermolecular recognition site; other site 349520003397 dimerization interface [polypeptide binding]; other site 349520003398 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 349520003399 DNA binding residues [nucleotide binding] 349520003400 dimerization interface [polypeptide binding]; other site 349520003401 Chain length determinant protein; Region: Wzz; cl15801 349520003402 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 349520003403 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 349520003404 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 349520003405 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 349520003406 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 349520003407 active site 349520003408 tetramer interface; other site 349520003409 Bacterial sugar transferase; Region: Bac_transf; pfam02397 349520003410 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 349520003411 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 349520003412 active site 349520003413 O-Antigen ligase; Region: Wzy_C; pfam04932 349520003414 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 349520003415 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 349520003416 O-Antigen ligase; Region: Wzy_C; pfam04932 349520003417 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 349520003418 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 349520003419 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 349520003420 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 349520003421 putative metal binding site; other site 349520003422 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349520003423 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 349520003424 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349520003425 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 349520003426 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349520003427 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 349520003428 putative ADP-binding pocket [chemical binding]; other site 349520003429 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 349520003430 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 349520003431 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 349520003432 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 349520003433 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 349520003434 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 349520003435 active site 349520003436 Cupin domain; Region: Cupin_2; cl17218 349520003437 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 349520003438 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 349520003439 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 349520003440 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 349520003441 non-specific DNA binding site [nucleotide binding]; other site 349520003442 salt bridge; other site 349520003443 sequence-specific DNA binding site [nucleotide binding]; other site 349520003444 Chain length determinant protein; Region: Wzz; cl15801 349520003445 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 349520003446 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 349520003447 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 349520003448 Bacterial sugar transferase; Region: Bac_transf; pfam02397 349520003449 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 349520003450 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 349520003451 NADP binding site [chemical binding]; other site 349520003452 active site 349520003453 putative substrate binding site [chemical binding]; other site 349520003454 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 349520003455 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 349520003456 NADP-binding site; other site 349520003457 homotetramer interface [polypeptide binding]; other site 349520003458 substrate binding site [chemical binding]; other site 349520003459 homodimer interface [polypeptide binding]; other site 349520003460 active site 349520003461 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 349520003462 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 349520003463 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 349520003464 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349520003465 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 349520003466 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349520003467 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 349520003468 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 349520003469 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 349520003470 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 349520003471 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 349520003472 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 349520003473 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 349520003474 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 349520003475 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520003476 Walker A/P-loop; other site 349520003477 ATP binding site [chemical binding]; other site 349520003478 Q-loop/lid; other site 349520003479 ABC transporter signature motif; other site 349520003480 Walker B; other site 349520003481 D-loop; other site 349520003482 H-loop/switch region; other site 349520003483 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 349520003484 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 349520003485 Domain of unknown function DUF20; Region: UPF0118; pfam01594 349520003486 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 349520003487 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 349520003488 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 349520003489 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 349520003490 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 349520003491 Peptidase family M23; Region: Peptidase_M23; pfam01551 349520003492 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 349520003493 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 349520003494 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 349520003495 putative active site [active] 349520003496 catalytic site [active] 349520003497 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 349520003498 putative active site [active] 349520003499 catalytic site [active] 349520003500 Uncharacterized conserved protein [Function unknown]; Region: COG1284 349520003501 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 349520003502 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 349520003503 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 349520003504 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 349520003505 nucleotide binding site [chemical binding]; other site 349520003506 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 349520003507 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 349520003508 active site 349520003509 dimer interface [polypeptide binding]; other site 349520003510 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 349520003511 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 349520003512 Ligand Binding Site [chemical binding]; other site 349520003513 Molecular Tunnel; other site 349520003514 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 349520003515 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 349520003516 active site 349520003517 metal-binding site [ion binding] 349520003518 active site 349520003519 nucleotide-binding site [chemical binding]; other site 349520003520 nucleotide-binding site [chemical binding]; other site 349520003521 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 349520003522 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 349520003523 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349520003524 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520003525 Walker A/P-loop; other site 349520003526 ATP binding site [chemical binding]; other site 349520003527 Q-loop/lid; other site 349520003528 ABC transporter signature motif; other site 349520003529 Walker B; other site 349520003530 D-loop; other site 349520003531 H-loop/switch region; other site 349520003532 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 349520003533 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 349520003534 putative DNA binding site [nucleotide binding]; other site 349520003535 putative homodimer interface [polypeptide binding]; other site 349520003536 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 349520003537 Small acid-soluble spore protein H family; Region: SspH; pfam08141 349520003538 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 349520003539 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 349520003540 acetoacetate decarboxylase; Provisional; Region: PRK02265 349520003541 putative acyltransferase; Provisional; Region: PRK05790 349520003542 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 349520003543 dimer interface [polypeptide binding]; other site 349520003544 active site 349520003545 Isochorismatase family; Region: Isochorismatase; pfam00857 349520003546 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 349520003547 catalytic triad [active] 349520003548 conserved cis-peptide bond; other site 349520003549 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 349520003550 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 349520003551 Glycoprotease family; Region: Peptidase_M22; pfam00814 349520003552 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 349520003553 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520003554 Coenzyme A binding pocket [chemical binding]; other site 349520003555 UGMP family protein; Validated; Region: PRK09604 349520003556 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 349520003557 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 349520003558 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 349520003559 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349520003560 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349520003561 ABC transporter; Region: ABC_tran_2; pfam12848 349520003562 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349520003563 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 349520003564 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 349520003565 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 349520003566 trimer interface [polypeptide binding]; other site 349520003567 dimer interface [polypeptide binding]; other site 349520003568 putative active site [active] 349520003569 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 349520003570 MPT binding site; other site 349520003571 trimer interface [polypeptide binding]; other site 349520003572 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 349520003573 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 349520003574 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 349520003575 oligomerisation interface [polypeptide binding]; other site 349520003576 mobile loop; other site 349520003577 roof hairpin; other site 349520003578 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 349520003579 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 349520003580 ring oligomerisation interface [polypeptide binding]; other site 349520003581 ATP/Mg binding site [chemical binding]; other site 349520003582 stacking interactions; other site 349520003583 hinge regions; other site 349520003584 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 349520003585 DNA binding site [nucleotide binding] 349520003586 active site 349520003587 Int/Topo IB signature motif; other site 349520003588 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349520003589 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349520003590 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 349520003591 Homeodomain-like domain; Region: HTH_23; pfam13384 349520003592 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 349520003593 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520003594 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520003595 Predicted peptidase [General function prediction only]; Region: COG4099 349520003596 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 349520003597 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 349520003598 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 349520003599 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 349520003600 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349520003601 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520003602 dimer interface [polypeptide binding]; other site 349520003603 putative PBP binding loops; other site 349520003604 ABC-ATPase subunit interface; other site 349520003605 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520003606 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520003607 dimer interface [polypeptide binding]; other site 349520003608 conserved gate region; other site 349520003609 putative PBP binding loops; other site 349520003610 ABC-ATPase subunit interface; other site 349520003611 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520003612 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 349520003613 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520003614 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520003615 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 349520003616 HlyD family secretion protein; Region: HlyD_3; pfam13437 349520003617 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 349520003618 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 349520003619 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 349520003620 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 349520003621 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520003622 dimer interface [polypeptide binding]; other site 349520003623 conserved gate region; other site 349520003624 putative PBP binding loops; other site 349520003625 ABC-ATPase subunit interface; other site 349520003626 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 349520003627 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 349520003628 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 349520003629 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 349520003630 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 349520003631 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 349520003632 Walker A/P-loop; other site 349520003633 ATP binding site [chemical binding]; other site 349520003634 Q-loop/lid; other site 349520003635 ABC transporter signature motif; other site 349520003636 Walker B; other site 349520003637 D-loop; other site 349520003638 H-loop/switch region; other site 349520003639 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 349520003640 Predicted transcriptional regulators [Transcription]; Region: COG1510 349520003641 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 349520003642 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 349520003643 substrate binding pocket [chemical binding]; other site 349520003644 catalytic triad [active] 349520003645 Cache domain; Region: Cache_1; pfam02743 349520003646 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 349520003647 dimerization interface [polypeptide binding]; other site 349520003648 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520003649 dimer interface [polypeptide binding]; other site 349520003650 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 349520003651 putative CheW interface [polypeptide binding]; other site 349520003652 EamA-like transporter family; Region: EamA; pfam00892 349520003653 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 349520003654 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 349520003655 Walker A/P-loop; other site 349520003656 ATP binding site [chemical binding]; other site 349520003657 Q-loop/lid; other site 349520003658 ABC transporter signature motif; other site 349520003659 Walker B; other site 349520003660 D-loop; other site 349520003661 H-loop/switch region; other site 349520003662 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520003663 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 349520003664 dimer interface [polypeptide binding]; other site 349520003665 phosphorylation site [posttranslational modification] 349520003666 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 349520003667 ATP binding site [chemical binding]; other site 349520003668 Mg2+ binding site [ion binding]; other site 349520003669 G-X-G motif; other site 349520003670 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520003671 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 349520003672 active site 349520003673 phosphorylation site [posttranslational modification] 349520003674 intermolecular recognition site; other site 349520003675 dimerization interface [polypeptide binding]; other site 349520003676 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 349520003677 DNA binding site [nucleotide binding] 349520003678 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 349520003679 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 349520003680 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 349520003681 Potassium binding sites [ion binding]; other site 349520003682 Cesium cation binding sites [ion binding]; other site 349520003683 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 349520003684 alanine racemase; Reviewed; Region: alr; PRK00053 349520003685 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 349520003686 active site 349520003687 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349520003688 dimer interface [polypeptide binding]; other site 349520003689 substrate binding site [chemical binding]; other site 349520003690 catalytic residues [active] 349520003691 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 349520003692 PemK-like protein; Region: PemK; pfam02452 349520003693 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 349520003694 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 349520003695 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 349520003696 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 349520003697 RNA binding site [nucleotide binding]; other site 349520003698 hypothetical protein; Provisional; Region: PRK04351 349520003699 SprT homologues; Region: SprT; cl01182 349520003700 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 349520003701 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 349520003702 active site 349520003703 motif I; other site 349520003704 motif II; other site 349520003705 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 349520003706 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 349520003707 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 349520003708 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 349520003709 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 349520003710 dimerization interface [polypeptide binding]; other site 349520003711 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520003712 putative DNA binding site [nucleotide binding]; other site 349520003713 putative Zn2+ binding site [ion binding]; other site 349520003714 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 349520003715 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 349520003716 non-specific DNA binding site [nucleotide binding]; other site 349520003717 salt bridge; other site 349520003718 sequence-specific DNA binding site [nucleotide binding]; other site 349520003719 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 349520003720 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 349520003721 non-specific DNA binding site [nucleotide binding]; other site 349520003722 salt bridge; other site 349520003723 sequence-specific DNA binding site [nucleotide binding]; other site 349520003724 UreF; Region: UreF; pfam01730 349520003725 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 349520003726 catalytic residues [active] 349520003727 dimer interface [polypeptide binding]; other site 349520003728 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 349520003729 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 349520003730 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349520003731 Soluble P-type ATPase [General function prediction only]; Region: COG4087 349520003732 K+-transporting ATPase, c chain [Inorganic ion transport and metabolism]; Region: KdpC; COG2156 349520003733 manganese transport protein MntH; Reviewed; Region: PRK00701 349520003734 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 349520003735 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 349520003736 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 349520003737 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 349520003738 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 349520003739 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 349520003740 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 349520003741 intersubunit interface [polypeptide binding]; other site 349520003742 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 349520003743 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 349520003744 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 349520003745 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 349520003746 ABC-ATPase subunit interface; other site 349520003747 dimer interface [polypeptide binding]; other site 349520003748 putative PBP binding regions; other site 349520003749 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 349520003750 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 349520003751 ABC-ATPase subunit interface; other site 349520003752 dimer interface [polypeptide binding]; other site 349520003753 putative PBP binding regions; other site 349520003754 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 349520003755 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 349520003756 Ligand Binding Site [chemical binding]; other site 349520003757 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 349520003758 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 349520003759 Ligand Binding Site [chemical binding]; other site 349520003760 AAA domain; Region: AAA_31; pfam13614 349520003761 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 349520003762 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 349520003763 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 349520003764 ATP binding site [chemical binding]; other site 349520003765 Walker A motif; other site 349520003766 hexamer interface [polypeptide binding]; other site 349520003767 Walker B motif; other site 349520003768 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 349520003769 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 349520003770 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 349520003771 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 349520003772 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 349520003773 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 349520003774 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 349520003775 phosphopeptide binding site; other site 349520003776 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 349520003777 TIGR01777 family protein; Region: yfcH 349520003778 putative NAD(P) binding site [chemical binding]; other site 349520003779 putative active site [active] 349520003780 endonuclease IV; Provisional; Region: PRK01060 349520003781 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 349520003782 AP (apurinic/apyrimidinic) site pocket; other site 349520003783 DNA interaction; other site 349520003784 Metal-binding active site; metal-binding site 349520003785 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 349520003786 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 349520003787 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 349520003788 putative active site [active] 349520003789 putative substrate binding site [chemical binding]; other site 349520003790 putative cosubstrate binding site; other site 349520003791 catalytic site [active] 349520003792 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 349520003793 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 349520003794 TPP-binding site [chemical binding]; other site 349520003795 dimer interface [polypeptide binding]; other site 349520003796 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 349520003797 PYR/PP interface [polypeptide binding]; other site 349520003798 dimer interface [polypeptide binding]; other site 349520003799 TPP binding site [chemical binding]; other site 349520003800 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349520003801 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 349520003802 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 349520003803 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 349520003804 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 349520003805 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 349520003806 active site 349520003807 dimer interface [polypeptide binding]; other site 349520003808 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 349520003809 dimer interface [polypeptide binding]; other site 349520003810 active site 349520003811 Uncharacterized conserved protein [Function unknown]; Region: COG1739 349520003812 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 349520003813 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 349520003814 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520003815 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520003816 WHG domain; Region: WHG; pfam13305 349520003817 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 349520003818 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 349520003819 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349520003820 Walker A/P-loop; other site 349520003821 ATP binding site [chemical binding]; other site 349520003822 Q-loop/lid; other site 349520003823 ABC transporter signature motif; other site 349520003824 Walker B; other site 349520003825 D-loop; other site 349520003826 H-loop/switch region; other site 349520003827 TOBE domain; Region: TOBE_2; pfam08402 349520003828 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349520003829 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 349520003830 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520003831 DNA-binding site [nucleotide binding]; DNA binding site 349520003832 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 349520003833 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520003834 homodimer interface [polypeptide binding]; other site 349520003835 catalytic residue [active] 349520003836 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 349520003837 EamA-like transporter family; Region: EamA; pfam00892 349520003838 EamA-like transporter family; Region: EamA; pfam00892 349520003839 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 349520003840 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 349520003841 active site 349520003842 motif I; other site 349520003843 motif II; other site 349520003844 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 349520003845 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 349520003846 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 349520003847 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 349520003848 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 349520003849 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 349520003850 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 349520003851 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520003852 homodimer interface [polypeptide binding]; other site 349520003853 catalytic residue [active] 349520003854 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 349520003855 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 349520003856 catalytic core [active] 349520003857 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 349520003858 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 349520003859 cobalamin binding residues [chemical binding]; other site 349520003860 putative BtuC binding residues; other site 349520003861 dimer interface [polypeptide binding]; other site 349520003862 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 349520003863 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 349520003864 ABC-ATPase subunit interface; other site 349520003865 dimer interface [polypeptide binding]; other site 349520003866 putative PBP binding regions; other site 349520003867 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 349520003868 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349520003869 Walker A/P-loop; other site 349520003870 ATP binding site [chemical binding]; other site 349520003871 Q-loop/lid; other site 349520003872 ABC transporter signature motif; other site 349520003873 Walker B; other site 349520003874 D-loop; other site 349520003875 H-loop/switch region; other site 349520003876 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 349520003877 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 349520003878 putative dimer interface [polypeptide binding]; other site 349520003879 active site pocket [active] 349520003880 putative cataytic base [active] 349520003881 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 349520003882 homotrimer interface [polypeptide binding]; other site 349520003883 Walker A motif; other site 349520003884 GTP binding site [chemical binding]; other site 349520003885 Walker B motif; other site 349520003886 cobalamin synthase; Reviewed; Region: cobS; PRK00235 349520003887 cobyric acid synthase; Provisional; Region: PRK00784 349520003888 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 349520003889 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 349520003890 catalytic triad [active] 349520003891 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 349520003892 dimerization interface [polypeptide binding]; other site 349520003893 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349520003894 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520003895 dimer interface [polypeptide binding]; other site 349520003896 putative CheW interface [polypeptide binding]; other site 349520003897 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 349520003898 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 349520003899 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 349520003900 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 349520003901 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 349520003902 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 349520003903 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 349520003904 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 349520003905 active site 349520003906 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 349520003907 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 349520003908 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520003909 Coenzyme A binding pocket [chemical binding]; other site 349520003910 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 349520003911 Uncharacterized conserved protein [Function unknown]; Region: COG2966 349520003912 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 349520003913 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 349520003914 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 349520003915 motif II; other site 349520003916 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349520003917 active site 349520003918 ATP binding site [chemical binding]; other site 349520003919 substrate binding site [chemical binding]; other site 349520003920 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 349520003921 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 349520003922 Malic enzyme, N-terminal domain; Region: malic; pfam00390 349520003923 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 349520003924 putative NAD(P) binding site [chemical binding]; other site 349520003925 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 349520003926 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 349520003927 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 349520003928 active site 349520003929 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 349520003930 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 349520003931 ATP binding site [chemical binding]; other site 349520003932 putative Mg++ binding site [ion binding]; other site 349520003933 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 349520003934 nucleotide binding region [chemical binding]; other site 349520003935 ATP-binding site [chemical binding]; other site 349520003936 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 349520003937 HRDC domain; Region: HRDC; pfam00570 349520003938 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 349520003939 Radical SAM superfamily; Region: Radical_SAM; pfam04055 349520003940 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 349520003941 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 349520003942 Alkaline phosphatase homologues; Region: alkPPc; smart00098 349520003943 active site 349520003944 dimer interface [polypeptide binding]; other site 349520003945 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 349520003946 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 349520003947 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 349520003948 S-adenosylmethionine binding site [chemical binding]; other site 349520003949 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 349520003950 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520003951 Coenzyme A binding pocket [chemical binding]; other site 349520003952 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 349520003953 putative active site [active] 349520003954 nucleotide binding site [chemical binding]; other site 349520003955 nudix motif; other site 349520003956 putative metal binding site [ion binding]; other site 349520003957 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 349520003958 Phosphotransferase enzyme family; Region: APH; pfam01636 349520003959 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 349520003960 active site 349520003961 ATP binding site [chemical binding]; other site 349520003962 Predicted acetyltransferase [General function prediction only]; Region: COG3981 349520003963 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 349520003964 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 349520003965 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349520003966 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 349520003967 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 349520003968 Zn2+ binding site [ion binding]; other site 349520003969 Mg2+ binding site [ion binding]; other site 349520003970 SPFH domain / Band 7 family; Region: Band_7; pfam01145 349520003971 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 349520003972 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349520003973 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 349520003974 DNA binding residues [nucleotide binding] 349520003975 dimerization interface [polypeptide binding]; other site 349520003976 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 349520003977 S-adenosylmethionine binding site [chemical binding]; other site 349520003978 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 349520003979 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520003980 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 349520003981 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 349520003982 motif II; other site 349520003983 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 349520003984 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 349520003985 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 349520003986 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 349520003987 active site 349520003988 catalytic triad [active] 349520003989 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 349520003990 S-adenosylmethionine binding site [chemical binding]; other site 349520003991 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 349520003992 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 349520003993 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 349520003994 GIY-YIG motif/motif A; other site 349520003995 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 349520003996 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 349520003997 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 349520003998 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 349520003999 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 349520004000 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 349520004001 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 349520004002 Interdomain contacts; other site 349520004003 Cytokine receptor motif; other site 349520004004 RHS Repeat; Region: RHS_repeat; pfam05593 349520004005 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 349520004006 RHS Repeat; Region: RHS_repeat; pfam05593 349520004007 RHS Repeat; Region: RHS_repeat; pfam05593 349520004008 RHS Repeat; Region: RHS_repeat; pfam05593 349520004009 RHS Repeat; Region: RHS_repeat; pfam05593 349520004010 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 349520004011 H+ Antiporter protein; Region: 2A0121; TIGR00900 349520004012 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 349520004013 putative substrate translocation pore; other site 349520004014 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 349520004015 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 349520004016 TPP-binding site [chemical binding]; other site 349520004017 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 349520004018 dimer interface [polypeptide binding]; other site 349520004019 PYR/PP interface [polypeptide binding]; other site 349520004020 TPP binding site [chemical binding]; other site 349520004021 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 349520004022 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 349520004023 E3 interaction surface; other site 349520004024 lipoyl attachment site [posttranslational modification]; other site 349520004025 e3 binding domain; Region: E3_binding; pfam02817 349520004026 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 349520004027 metal-dependent hydrolase; Provisional; Region: PRK13291 349520004028 DinB superfamily; Region: DinB_2; pfam12867 349520004029 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 349520004030 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 349520004031 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 349520004032 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 349520004033 Methyltransferase domain; Region: Methyltransf_31; pfam13847 349520004034 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 349520004035 S-adenosylmethionine binding site [chemical binding]; other site 349520004036 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 349520004037 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 349520004038 S-adenosylmethionine binding site [chemical binding]; other site 349520004039 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 349520004040 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 349520004041 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 349520004042 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 349520004043 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 349520004044 active site 349520004045 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 349520004046 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 349520004047 DXD motif; other site 349520004048 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 349520004049 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 349520004050 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 349520004051 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 349520004052 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 349520004053 23S rRNA binding site [nucleotide binding]; other site 349520004054 L21 binding site [polypeptide binding]; other site 349520004055 L13 binding site [polypeptide binding]; other site 349520004056 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 349520004057 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 349520004058 ligand binding site [chemical binding]; other site 349520004059 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 349520004060 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520004061 Walker A/P-loop; other site 349520004062 ATP binding site [chemical binding]; other site 349520004063 Q-loop/lid; other site 349520004064 ABC transporter signature motif; other site 349520004065 Walker B; other site 349520004066 D-loop; other site 349520004067 H-loop/switch region; other site 349520004068 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 349520004069 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 349520004070 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349520004071 TM-ABC transporter signature motif; other site 349520004072 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349520004073 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 349520004074 TM-ABC transporter signature motif; other site 349520004075 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 349520004076 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520004077 Coenzyme A binding pocket [chemical binding]; other site 349520004078 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 349520004079 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 349520004080 PYR/PP interface [polypeptide binding]; other site 349520004081 dimer interface [polypeptide binding]; other site 349520004082 TPP binding site [chemical binding]; other site 349520004083 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 349520004084 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 349520004085 TPP-binding site [chemical binding]; other site 349520004086 dimer interface [polypeptide binding]; other site 349520004087 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 349520004088 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 349520004089 putative valine binding site [chemical binding]; other site 349520004090 dimer interface [polypeptide binding]; other site 349520004091 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 349520004092 ketol-acid reductoisomerase; Provisional; Region: PRK05479 349520004093 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 349520004094 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 349520004095 2-isopropylmalate synthase; Validated; Region: PRK00915 349520004096 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 349520004097 active site 349520004098 catalytic residues [active] 349520004099 metal binding site [ion binding]; metal-binding site 349520004100 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 349520004101 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 349520004102 tartrate dehydrogenase; Region: TTC; TIGR02089 349520004103 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 349520004104 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 349520004105 dimer interface [polypeptide binding]; other site 349520004106 decamer (pentamer of dimers) interface [polypeptide binding]; other site 349520004107 catalytic triad [active] 349520004108 peroxidatic and resolving cysteines [active] 349520004109 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 349520004110 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520004111 putative active site [active] 349520004112 heme pocket [chemical binding]; other site 349520004113 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 349520004114 dimer interface [polypeptide binding]; other site 349520004115 phosphorylation site [posttranslational modification] 349520004116 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 349520004117 ATP binding site [chemical binding]; other site 349520004118 Mg2+ binding site [ion binding]; other site 349520004119 G-X-G motif; other site 349520004120 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 349520004121 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349520004122 metal binding site [ion binding]; metal-binding site 349520004123 active site 349520004124 I-site; other site 349520004125 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 349520004126 Pectate lyase [Carbohydrate transport and metabolism]; Region: PelB; COG3866 349520004127 Pectate lyase; Region: Pec_lyase_C; cl01593 349520004128 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 349520004129 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520004130 Walker A/P-loop; other site 349520004131 ATP binding site [chemical binding]; other site 349520004132 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349520004133 ABC transporter signature motif; other site 349520004134 Walker B; other site 349520004135 D-loop; other site 349520004136 ABC transporter; Region: ABC_tran_2; pfam12848 349520004137 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349520004138 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 349520004139 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 349520004140 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 349520004141 dimer interface [polypeptide binding]; other site 349520004142 motif 1; other site 349520004143 active site 349520004144 motif 2; other site 349520004145 motif 3; other site 349520004146 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 349520004147 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 349520004148 putative tRNA-binding site [nucleotide binding]; other site 349520004149 B3/4 domain; Region: B3_4; pfam03483 349520004150 tRNA synthetase B5 domain; Region: B5; smart00874 349520004151 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 349520004152 dimer interface [polypeptide binding]; other site 349520004153 motif 1; other site 349520004154 motif 3; other site 349520004155 motif 2; other site 349520004156 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 349520004157 Cell division protein ZapA; Region: ZapA; cl01146 349520004158 Membrane protein of unknown function; Region: DUF360; pfam04020 349520004159 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 349520004160 MutS domain III; Region: MutS_III; pfam05192 349520004161 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 349520004162 Walker A/P-loop; other site 349520004163 ATP binding site [chemical binding]; other site 349520004164 Q-loop/lid; other site 349520004165 ABC transporter signature motif; other site 349520004166 Walker B; other site 349520004167 D-loop; other site 349520004168 H-loop/switch region; other site 349520004169 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 349520004170 Smr domain; Region: Smr; pfam01713 349520004171 Predicted membrane protein [Function unknown]; Region: COG3766 349520004172 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 349520004173 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 349520004174 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 349520004175 putative substrate translocation pore; other site 349520004176 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 349520004177 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 349520004178 Coat F domain; Region: Coat_F; pfam07875 349520004179 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 349520004180 AsnC family; Region: AsnC_trans_reg; pfam01037 349520004181 hypothetical protein; Validated; Region: PRK07682 349520004182 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 349520004183 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520004184 homodimer interface [polypeptide binding]; other site 349520004185 catalytic residue [active] 349520004186 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 349520004187 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 349520004188 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 349520004189 RNA binding surface [nucleotide binding]; other site 349520004190 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 349520004191 active site 349520004192 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 349520004193 ArsC family; Region: ArsC; pfam03960 349520004194 putative ArsC-like catalytic residues; other site 349520004195 putative TRX-like catalytic residues [active] 349520004196 5'-3' exonuclease; Region: 53EXOc; smart00475 349520004197 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 349520004198 active site 349520004199 metal binding site 1 [ion binding]; metal-binding site 349520004200 putative 5' ssDNA interaction site; other site 349520004201 metal binding site 3; metal-binding site 349520004202 metal binding site 2 [ion binding]; metal-binding site 349520004203 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 349520004204 putative DNA binding site [nucleotide binding]; other site 349520004205 putative metal binding site [ion binding]; other site 349520004206 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 349520004207 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 349520004208 nucleotide binding site [chemical binding]; other site 349520004209 HRDC domain; Region: HRDC; pfam00570 349520004210 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 349520004211 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 349520004212 oligomer interface [polypeptide binding]; other site 349520004213 metal binding site [ion binding]; metal-binding site 349520004214 metal binding site [ion binding]; metal-binding site 349520004215 putative Cl binding site [ion binding]; other site 349520004216 aspartate ring; other site 349520004217 basic sphincter; other site 349520004218 hydrophobic gate; other site 349520004219 periplasmic entrance; other site 349520004220 Homoserine O-succinyltransferase; Region: HTS; pfam04204 349520004221 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 349520004222 proposed active site lysine [active] 349520004223 conserved cys residue [active] 349520004224 cystathionine gamma-synthase; Reviewed; Region: PRK08247 349520004225 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 349520004226 homodimer interface [polypeptide binding]; other site 349520004227 substrate-cofactor binding pocket; other site 349520004228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520004229 catalytic residue [active] 349520004230 cystathionine beta-lyase; Provisional; Region: PRK08064 349520004231 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 349520004232 homodimer interface [polypeptide binding]; other site 349520004233 substrate-cofactor binding pocket; other site 349520004234 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520004235 catalytic residue [active] 349520004236 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 349520004237 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 349520004238 FeS/SAM binding site; other site 349520004239 Uncharacterized conserved protein [Function unknown]; Region: COG1284 349520004240 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 349520004241 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 349520004242 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 349520004243 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 349520004244 TrkA-C domain; Region: TrkA_C; pfam02080 349520004245 YtxC-like family; Region: YtxC; pfam08812 349520004246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 349520004247 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 349520004248 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 349520004249 protein binding site [polypeptide binding]; other site 349520004250 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520004251 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 349520004252 active site 349520004253 phosphorylation site [posttranslational modification] 349520004254 intermolecular recognition site; other site 349520004255 dimerization interface [polypeptide binding]; other site 349520004256 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 349520004257 DNA binding site [nucleotide binding] 349520004258 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520004259 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 349520004260 dimerization interface [polypeptide binding]; other site 349520004261 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 349520004262 dimer interface [polypeptide binding]; other site 349520004263 phosphorylation site [posttranslational modification] 349520004264 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 349520004265 ATP binding site [chemical binding]; other site 349520004266 Mg2+ binding site [ion binding]; other site 349520004267 G-X-G motif; other site 349520004268 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 349520004269 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 349520004270 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 349520004271 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 349520004272 glutamine synthetase, type I; Region: GlnA; TIGR00653 349520004273 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 349520004274 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 349520004275 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 349520004276 homodimer interface [polypeptide binding]; other site 349520004277 substrate-cofactor binding pocket; other site 349520004278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520004279 catalytic residue [active] 349520004280 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 349520004281 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 349520004282 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 349520004283 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 349520004284 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349520004285 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 349520004286 active site 349520004287 phosphorylation site [posttranslational modification] 349520004288 intermolecular recognition site; other site 349520004289 dimerization interface [polypeptide binding]; other site 349520004290 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 349520004291 DNA binding residues [nucleotide binding] 349520004292 dimerization interface [polypeptide binding]; other site 349520004293 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 349520004294 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 349520004295 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520004296 homodimer interface [polypeptide binding]; other site 349520004297 catalytic residue [active] 349520004298 Uncharacterized conserved protein (DUF2161); Region: DUF2161; cl02298 349520004299 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 349520004300 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 349520004301 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520004302 putative CheW interface [polypeptide binding]; other site 349520004303 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 349520004304 Phosphotransferase enzyme family; Region: APH; pfam01636 349520004305 Phosphotransferase enzyme family; Region: APH; pfam01636 349520004306 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 349520004307 active site 349520004308 ATP binding site [chemical binding]; other site 349520004309 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 349520004310 Predicted membrane protein [Function unknown]; Region: COG3212 349520004311 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 349520004312 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 349520004313 hypothetical protein; Provisional; Region: PRK10481 349520004314 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 349520004315 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 349520004316 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 349520004317 DRTGG domain; Region: DRTGG; pfam07085 349520004318 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 349520004319 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 349520004320 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520004321 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 349520004322 active site 349520004323 phosphorylation site [posttranslational modification] 349520004324 intermolecular recognition site; other site 349520004325 dimerization interface [polypeptide binding]; other site 349520004326 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 349520004327 DNA binding site [nucleotide binding] 349520004328 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520004329 HAMP domain; Region: HAMP; pfam00672 349520004330 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 349520004331 dimer interface [polypeptide binding]; other site 349520004332 phosphorylation site [posttranslational modification] 349520004333 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 349520004334 ATP binding site [chemical binding]; other site 349520004335 Mg2+ binding site [ion binding]; other site 349520004336 G-X-G motif; other site 349520004337 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 349520004338 SpoVR like protein; Region: SpoVR; pfam04293 349520004339 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 349520004340 sporulation protein YhbH; Region: spore_yhbH; TIGR02877 349520004341 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520004342 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 349520004343 active site 349520004344 phosphorylation site [posttranslational modification] 349520004345 intermolecular recognition site; other site 349520004346 dimerization interface [polypeptide binding]; other site 349520004347 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 349520004348 DNA binding site [nucleotide binding] 349520004349 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520004350 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 349520004351 dimer interface [polypeptide binding]; other site 349520004352 phosphorylation site [posttranslational modification] 349520004353 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 349520004354 ATP binding site [chemical binding]; other site 349520004355 Mg2+ binding site [ion binding]; other site 349520004356 G-X-G motif; other site 349520004357 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 349520004358 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 349520004359 Walker A/P-loop; other site 349520004360 ATP binding site [chemical binding]; other site 349520004361 Q-loop/lid; other site 349520004362 ABC transporter signature motif; other site 349520004363 Walker B; other site 349520004364 D-loop; other site 349520004365 H-loop/switch region; other site 349520004366 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 349520004367 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 349520004368 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 349520004369 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 349520004370 Lanthionine synthetase C-like protein; Region: LANC_like; pfam05147 349520004371 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 349520004372 active site 349520004373 zinc binding site [ion binding]; other site 349520004374 Lanthionine synthetase C-like protein; Region: LANC_like; pfam05147 349520004375 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 349520004376 active site 349520004377 zinc binding site [ion binding]; other site 349520004378 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520004379 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 349520004380 DNA binding site [nucleotide binding] 349520004381 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 349520004382 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 349520004383 thiopeptide-type bacteriocin biosynthesis domain; Region: thiopep_ocin; TIGR03891 349520004384 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349520004385 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520004386 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520004387 Walker A/P-loop; other site 349520004388 ATP binding site [chemical binding]; other site 349520004389 Q-loop/lid; other site 349520004390 ABC transporter signature motif; other site 349520004391 Walker B; other site 349520004392 D-loop; other site 349520004393 H-loop/switch region; other site 349520004394 Predicted membrane protein [Function unknown]; Region: COG4392 349520004395 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 349520004396 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520004397 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 349520004398 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 349520004399 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 349520004400 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 349520004401 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 349520004402 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 349520004403 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 349520004404 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 349520004405 active site 349520004406 motif I; other site 349520004407 motif II; other site 349520004408 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 349520004409 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 349520004410 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 349520004411 Walker A motif; other site 349520004412 ATP binding site [chemical binding]; other site 349520004413 Walker B motif; other site 349520004414 arginine finger; other site 349520004415 Transcriptional antiterminator [Transcription]; Region: COG3933 349520004416 PRD domain; Region: PRD; pfam00874 349520004417 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 349520004418 active pocket/dimerization site; other site 349520004419 active site 349520004420 phosphorylation site [posttranslational modification] 349520004421 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 349520004422 active pocket/dimerization site; other site 349520004423 active site 349520004424 phosphorylation site [posttranslational modification] 349520004425 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 349520004426 active site 349520004427 phosphorylation site [posttranslational modification] 349520004428 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 349520004429 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 349520004430 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 349520004431 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 349520004432 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 349520004433 putative substrate binding site [chemical binding]; other site 349520004434 putative ATP binding site [chemical binding]; other site 349520004435 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520004436 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520004437 DNA binding site [nucleotide binding] 349520004438 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 349520004439 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 349520004440 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520004441 dimer interface [polypeptide binding]; other site 349520004442 conserved gate region; other site 349520004443 putative PBP binding loops; other site 349520004444 ABC-ATPase subunit interface; other site 349520004445 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520004446 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520004447 dimer interface [polypeptide binding]; other site 349520004448 conserved gate region; other site 349520004449 putative PBP binding loops; other site 349520004450 ABC-ATPase subunit interface; other site 349520004451 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520004452 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 349520004453 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 349520004454 substrate binding [chemical binding]; other site 349520004455 active site 349520004456 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 349520004457 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 349520004458 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 349520004459 non-specific DNA binding site [nucleotide binding]; other site 349520004460 salt bridge; other site 349520004461 sequence-specific DNA binding site [nucleotide binding]; other site 349520004462 Cupin domain; Region: Cupin_2; pfam07883 349520004463 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 349520004464 Glycosyl hydrolase family 43; Region: GH43_6; cd08985 349520004465 active site 349520004466 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 349520004467 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 349520004468 putative sugar binding sites [chemical binding]; other site 349520004469 Q-X-W motif; other site 349520004470 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 349520004471 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 349520004472 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 349520004473 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 349520004474 active site 349520004475 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349520004476 Transposase; Region: HTH_Tnp_1; cl17663 349520004477 putative transposase OrfB; Reviewed; Region: PHA02517 349520004478 HTH-like domain; Region: HTH_21; pfam13276 349520004479 Integrase core domain; Region: rve; pfam00665 349520004480 Integrase core domain; Region: rve_2; pfam13333 349520004481 S-layer homology domain; Region: SLH; pfam00395 349520004482 S-layer homology domain; Region: SLH; pfam00395 349520004483 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 349520004484 active site 349520004485 EDD domain protein, DegV family; Region: DegV; TIGR00762 349520004486 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 349520004487 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 349520004488 KNTase C-terminal domain; Region: KNTase_C; pfam07827 349520004489 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 349520004490 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 349520004491 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 349520004492 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 349520004493 siderophore binding site; other site 349520004494 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 349520004495 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 349520004496 ABC-ATPase subunit interface; other site 349520004497 dimer interface [polypeptide binding]; other site 349520004498 putative PBP binding regions; other site 349520004499 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 349520004500 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 349520004501 ABC-ATPase subunit interface; other site 349520004502 dimer interface [polypeptide binding]; other site 349520004503 putative PBP binding regions; other site 349520004504 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 349520004505 dimerization interface [polypeptide binding]; other site 349520004506 putative DNA binding site [nucleotide binding]; other site 349520004507 putative Zn2+ binding site [ion binding]; other site 349520004508 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 349520004509 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 349520004510 putative substrate translocation pore; other site 349520004511 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349520004512 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 349520004513 active site 349520004514 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520004515 Coenzyme A binding pocket [chemical binding]; other site 349520004516 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 349520004517 salt bridge; other site 349520004518 non-specific DNA binding site [nucleotide binding]; other site 349520004519 sequence-specific DNA binding site [nucleotide binding]; other site 349520004520 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 349520004521 Proteins of 100 residues with WXG; Region: WXG100; pfam06013 349520004522 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 349520004523 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 349520004524 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 349520004525 Proteins of 100 residues with WXG; Region: WXG100; pfam06013 349520004526 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 349520004527 SEFIR domain; Region: SEFIR; pfam08357 349520004528 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 349520004529 non-specific DNA binding site [nucleotide binding]; other site 349520004530 sequence-specific DNA binding site [nucleotide binding]; other site 349520004531 salt bridge; other site 349520004532 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 349520004533 tail protein; Region: PHA00380 349520004534 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 349520004535 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 349520004536 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 349520004537 catalytic residues [active] 349520004538 catalytic nucleophile [active] 349520004539 Presynaptic Site I dimer interface [polypeptide binding]; other site 349520004540 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 349520004541 Synaptic Flat tetramer interface [polypeptide binding]; other site 349520004542 Synaptic Site I dimer interface [polypeptide binding]; other site 349520004543 DNA binding site [nucleotide binding] 349520004544 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 349520004545 non-specific DNA binding site [nucleotide binding]; other site 349520004546 salt bridge; other site 349520004547 sequence-specific DNA binding site [nucleotide binding]; other site 349520004548 Proteins of 100 residues with WXG; Region: WXG100; pfam06013 349520004549 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 349520004550 metal binding site [ion binding]; metal-binding site 349520004551 DEAD-like helicases superfamily; Region: DEXDc; smart00487 349520004552 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 349520004553 ATP binding site [chemical binding]; other site 349520004554 putative Mg++ binding site [ion binding]; other site 349520004555 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 349520004556 Helix-turn-helix domain; Region: HTH_38; pfam13936 349520004557 Homeodomain-like domain; Region: HTH_32; pfam13565 349520004558 Integrase core domain; Region: rve; pfam00665 349520004559 Helix-turn-helix domain; Region: HTH_17; cl17695 349520004560 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 349520004561 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 349520004562 Int/Topo IB signature motif; other site 349520004563 Domain of unknown function (DUF1805); Region: DUF1805; pfam08827 349520004564 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 349520004565 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 349520004566 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 349520004567 Phosphotransferase enzyme family; Region: APH; pfam01636 349520004568 Ferritin-like domain; Region: Ferritin; pfam00210 349520004569 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 349520004570 dimerization interface [polypeptide binding]; other site 349520004571 DPS ferroxidase diiron center [ion binding]; other site 349520004572 ion pore; other site 349520004573 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 349520004574 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 349520004575 Walker A/P-loop; other site 349520004576 ATP binding site [chemical binding]; other site 349520004577 Q-loop/lid; other site 349520004578 ABC transporter signature motif; other site 349520004579 Walker B; other site 349520004580 D-loop; other site 349520004581 H-loop/switch region; other site 349520004582 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 349520004583 FeS assembly protein SufD; Region: sufD; TIGR01981 349520004584 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 349520004585 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 349520004586 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349520004587 catalytic residue [active] 349520004588 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 349520004589 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 349520004590 trimerization site [polypeptide binding]; other site 349520004591 active site 349520004592 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 349520004593 FeS assembly protein SufB; Region: sufB; TIGR01980 349520004594 YmaF family; Region: YmaF; pfam12788 349520004595 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 349520004596 dimanganese center [ion binding]; other site 349520004597 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 349520004598 dinuclear metal binding motif [ion binding]; other site 349520004599 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 349520004600 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 349520004601 Zn2+ binding site [ion binding]; other site 349520004602 Mg2+ binding site [ion binding]; other site 349520004603 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 349520004604 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 349520004605 active site 349520004606 metal binding site [ion binding]; metal-binding site 349520004607 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 349520004608 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 349520004609 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 349520004610 Zn2+ binding site [ion binding]; other site 349520004611 Mg2+ binding site [ion binding]; other site 349520004612 Radical SAM superfamily; Region: Radical_SAM; pfam04055 349520004613 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 349520004614 FeS/SAM binding site; other site 349520004615 YfkB-like domain; Region: YfkB; pfam08756 349520004616 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 349520004617 Domain of unknown function DUF21; Region: DUF21; pfam01595 349520004618 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 349520004619 Transporter associated domain; Region: CorC_HlyC; smart01091 349520004620 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 349520004621 CotJB protein; Region: CotJB; pfam12652 349520004622 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 349520004623 dimanganese center [ion binding]; other site 349520004624 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 349520004625 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 349520004626 putative metal binding site; other site 349520004627 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 349520004628 binding surface 349520004629 TPR motif; other site 349520004630 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 349520004631 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 349520004632 active site 349520004633 Methyltransferase domain; Region: Methyltransf_31; pfam13847 349520004634 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 349520004635 S-adenosylmethionine binding site [chemical binding]; other site 349520004636 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 349520004637 S-adenosylmethionine binding site [chemical binding]; other site 349520004638 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 349520004639 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 349520004640 motif II; other site 349520004641 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 349520004642 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 349520004643 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 349520004644 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 349520004645 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 349520004646 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 349520004647 hypothetical protein; Provisional; Region: PRK13676 349520004648 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 349520004649 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520004650 DNA-binding site [nucleotide binding]; DNA binding site 349520004651 DRTGG domain; Region: DRTGG; pfam07085 349520004652 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 349520004653 Thioesterase superfamily; Region: 4HBT; pfam03061 349520004654 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 349520004655 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 349520004656 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 349520004657 active site 349520004658 PHP Thumb interface [polypeptide binding]; other site 349520004659 metal binding site [ion binding]; metal-binding site 349520004660 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 349520004661 generic binding surface II; other site 349520004662 generic binding surface I; other site 349520004663 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 349520004664 tetramer interfaces [polypeptide binding]; other site 349520004665 binuclear metal-binding site [ion binding]; other site 349520004666 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 349520004667 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 349520004668 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 349520004669 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 349520004670 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 349520004671 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 349520004672 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 349520004673 domain interfaces; other site 349520004674 active site 349520004675 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520004676 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 349520004677 putative DNA binding site [nucleotide binding]; other site 349520004678 putative Zn2+ binding site [ion binding]; other site 349520004679 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 349520004680 dimerization interface [polypeptide binding]; other site 349520004681 PBP superfamily domain; Region: PBP_like_2; cl17296 349520004682 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 349520004683 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 349520004684 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520004685 dimer interface [polypeptide binding]; other site 349520004686 conserved gate region; other site 349520004687 putative PBP binding loops; other site 349520004688 ABC-ATPase subunit interface; other site 349520004689 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 349520004690 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520004691 dimer interface [polypeptide binding]; other site 349520004692 conserved gate region; other site 349520004693 putative PBP binding loops; other site 349520004694 ABC-ATPase subunit interface; other site 349520004695 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 349520004696 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 349520004697 Walker A/P-loop; other site 349520004698 ATP binding site [chemical binding]; other site 349520004699 Q-loop/lid; other site 349520004700 ABC transporter signature motif; other site 349520004701 Walker B; other site 349520004702 D-loop; other site 349520004703 H-loop/switch region; other site 349520004704 Pectic acid lyase; Region: Pec_lyase; pfam09492 349520004705 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 349520004706 active site 349520004707 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 349520004708 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 349520004709 Domain of unknown function DUF20; Region: UPF0118; pfam01594 349520004710 Bacillus subtilis (Bs) citrate synthase (CS)-II_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the...; Region: BSuCS-II_like; cd06110 349520004711 dimer interface [polypeptide binding]; other site 349520004712 Citrate synthase; Region: Citrate_synt; pfam00285 349520004713 active site 349520004714 citrylCoA binding site [chemical binding]; other site 349520004715 oxalacetate/citrate binding site [chemical binding]; other site 349520004716 coenzyme A binding site [chemical binding]; other site 349520004717 catalytic triad [active] 349520004718 isocitrate dehydrogenase; Validated; Region: PRK06451 349520004719 isocitrate dehydrogenase; Reviewed; Region: PRK07006 349520004720 malate dehydrogenase; Reviewed; Region: PRK06223 349520004721 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 349520004722 NAD(P) binding site [chemical binding]; other site 349520004723 dimer interface [polypeptide binding]; other site 349520004724 tetramer (dimer of dimers) interface [polypeptide binding]; other site 349520004725 substrate binding site [chemical binding]; other site 349520004726 short chain dehydrogenase; Provisional; Region: PRK06701 349520004727 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 349520004728 NAD binding site [chemical binding]; other site 349520004729 metal binding site [ion binding]; metal-binding site 349520004730 active site 349520004731 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 349520004732 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 349520004733 dimerization interface [polypeptide binding]; other site 349520004734 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 349520004735 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 349520004736 dimer interface [polypeptide binding]; other site 349520004737 phosphorylation site [posttranslational modification] 349520004738 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 349520004739 ATP binding site [chemical binding]; other site 349520004740 Mg2+ binding site [ion binding]; other site 349520004741 G-X-G motif; other site 349520004742 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520004743 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 349520004744 active site 349520004745 phosphorylation site [posttranslational modification] 349520004746 intermolecular recognition site; other site 349520004747 dimerization interface [polypeptide binding]; other site 349520004748 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 349520004749 DNA binding site [nucleotide binding] 349520004750 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 349520004751 FOG: CBS domain [General function prediction only]; Region: COG0517 349520004752 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520004753 dimer interface [polypeptide binding]; other site 349520004754 putative CheW interface [polypeptide binding]; other site 349520004755 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 349520004756 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 349520004757 Walker A/P-loop; other site 349520004758 ATP binding site [chemical binding]; other site 349520004759 Q-loop/lid; other site 349520004760 ABC transporter signature motif; other site 349520004761 Walker B; other site 349520004762 D-loop; other site 349520004763 H-loop/switch region; other site 349520004764 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 349520004765 PhoU domain; Region: PhoU; pfam01895 349520004766 PhoU domain; Region: PhoU; pfam01895 349520004767 DNA polymerase I; Provisional; Region: PRK05755 349520004768 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 349520004769 active site 349520004770 metal binding site 1 [ion binding]; metal-binding site 349520004771 putative 5' ssDNA interaction site; other site 349520004772 metal binding site 3; metal-binding site 349520004773 metal binding site 2 [ion binding]; metal-binding site 349520004774 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 349520004775 putative DNA binding site [nucleotide binding]; other site 349520004776 putative metal binding site [ion binding]; other site 349520004777 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 349520004778 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 349520004779 active site 349520004780 DNA binding site [nucleotide binding] 349520004781 catalytic site [active] 349520004782 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 349520004783 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 349520004784 DNA binding site [nucleotide binding] 349520004785 catalytic residue [active] 349520004786 H2TH interface [polypeptide binding]; other site 349520004787 putative catalytic residues [active] 349520004788 turnover-facilitating residue; other site 349520004789 intercalation triad [nucleotide binding]; other site 349520004790 8OG recognition residue [nucleotide binding]; other site 349520004791 putative reading head residues; other site 349520004792 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 349520004793 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 349520004794 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 349520004795 Domain of unknown function DUF; Region: DUF204; pfam02659 349520004796 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 349520004797 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 349520004798 CoA-binding site [chemical binding]; other site 349520004799 ATP-binding [chemical binding]; other site 349520004800 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 349520004801 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 349520004802 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349520004803 catalytic residue [active] 349520004804 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 349520004805 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 349520004806 ATP cone domain; Region: ATP-cone; pfam03477 349520004807 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349520004808 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 349520004809 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520004810 Coenzyme A binding pocket [chemical binding]; other site 349520004811 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 349520004812 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 349520004813 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 349520004814 DNA binding residues [nucleotide binding] 349520004815 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 349520004816 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 349520004817 FeS/SAM binding site; other site 349520004818 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 349520004819 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520004820 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520004821 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 349520004822 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349520004823 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349520004824 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 349520004825 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349520004826 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 349520004827 ligand binding site [chemical binding]; other site 349520004828 flexible hinge region; other site 349520004829 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 349520004830 putative switch regulator; other site 349520004831 non-specific DNA interactions [nucleotide binding]; other site 349520004832 DNA binding site [nucleotide binding] 349520004833 sequence specific DNA binding site [nucleotide binding]; other site 349520004834 putative cAMP binding site [chemical binding]; other site 349520004835 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 349520004836 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 349520004837 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 349520004838 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 349520004839 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520004840 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520004841 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 349520004842 dimerization interface [polypeptide binding]; other site 349520004843 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 349520004844 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 349520004845 S-adenosylmethionine binding site [chemical binding]; other site 349520004846 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 349520004847 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 349520004848 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 349520004849 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 349520004850 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 349520004851 putative substrate binding site [chemical binding]; other site 349520004852 putative ATP binding site [chemical binding]; other site 349520004853 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 349520004854 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 349520004855 active site 349520004856 phosphorylation site [posttranslational modification] 349520004857 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 349520004858 active site 349520004859 P-loop; other site 349520004860 phosphorylation site [posttranslational modification] 349520004861 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 349520004862 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520004863 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520004864 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 349520004865 dimerization interface [polypeptide binding]; other site 349520004866 active site 1 [active] 349520004867 dimer interface [polypeptide binding]; other site 349520004868 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 349520004869 hexamer interface [polypeptide binding]; other site 349520004870 active site 2 [active] 349520004871 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 349520004872 transcriptional antiterminator BglG; Provisional; Region: PRK09772 349520004873 CAT RNA binding domain; Region: CAT_RBD; smart01061 349520004874 PRD domain; Region: PRD; pfam00874 349520004875 PRD domain; Region: PRD; pfam00874 349520004876 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 349520004877 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 349520004878 active site turn [active] 349520004879 phosphorylation site [posttranslational modification] 349520004880 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 349520004881 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 349520004882 HPr interaction site; other site 349520004883 glycerol kinase (GK) interaction site [polypeptide binding]; other site 349520004884 active site 349520004885 phosphorylation site [posttranslational modification] 349520004886 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 349520004887 beta-galactosidase; Region: BGL; TIGR03356 349520004888 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520004889 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520004890 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 349520004891 dimerization interface [polypeptide binding]; other site 349520004892 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 349520004893 substrate binding site [chemical binding]; other site 349520004894 THF binding site; other site 349520004895 zinc-binding site [ion binding]; other site 349520004896 YCII-related domain; Region: YCII; cl00999 349520004897 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 349520004898 non-specific DNA binding site [nucleotide binding]; other site 349520004899 salt bridge; other site 349520004900 sequence-specific DNA binding site [nucleotide binding]; other site 349520004901 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520004902 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520004903 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 349520004904 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 349520004905 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 349520004906 heat shock protein 90; Provisional; Region: PRK05218 349520004907 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 349520004908 ATP binding site [chemical binding]; other site 349520004909 Mg2+ binding site [ion binding]; other site 349520004910 G-X-G motif; other site 349520004911 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 349520004912 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520004913 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 349520004914 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 349520004915 dimer interface [polypeptide binding]; other site 349520004916 active site 349520004917 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349520004918 catalytic residues [active] 349520004919 substrate binding site [chemical binding]; other site 349520004920 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 349520004921 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520004922 Coenzyme A binding pocket [chemical binding]; other site 349520004923 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 349520004924 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 349520004925 Coenzyme A binding pocket [chemical binding]; other site 349520004926 potential frameshift: common BLAST hit: gi|238923421|ref|YP_002936937.1| acyl-CoA thioesterase I-like protein 349520004927 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 349520004928 active site 349520004929 catalytic triad [active] 349520004930 oxyanion hole [active] 349520004931 Cupin domain; Region: Cupin_2; cl17218 349520004932 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 349520004933 Response regulator receiver domain; Region: Response_reg; pfam00072 349520004934 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 349520004935 active site 349520004936 phosphorylation site [posttranslational modification] 349520004937 intermolecular recognition site; other site 349520004938 dimerization interface [polypeptide binding]; other site 349520004939 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520004940 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520004941 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520004942 HAMP domain; Region: HAMP; pfam00672 349520004943 dimerization interface [polypeptide binding]; other site 349520004944 Histidine kinase; Region: His_kinase; pfam06580 349520004945 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 349520004946 ATP binding site [chemical binding]; other site 349520004947 Mg2+ binding site [ion binding]; other site 349520004948 G-X-G motif; other site 349520004949 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 349520004950 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 349520004951 active site 349520004952 phosphorylation site [posttranslational modification] 349520004953 intermolecular recognition site; other site 349520004954 dimerization interface [polypeptide binding]; other site 349520004955 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520004956 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520004957 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 349520004958 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520004959 dimer interface [polypeptide binding]; other site 349520004960 conserved gate region; other site 349520004961 putative PBP binding loops; other site 349520004962 ABC-ATPase subunit interface; other site 349520004963 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520004964 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520004965 dimer interface [polypeptide binding]; other site 349520004966 conserved gate region; other site 349520004967 ABC-ATPase subunit interface; other site 349520004968 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 349520004969 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 349520004970 inhibitor binding site; inhibition site 349520004971 active site 349520004972 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 349520004973 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 349520004974 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 349520004975 Carbohydrate Binding Module family 35 (CBM35), pectate lyase-like; appended mainly to enzymes that bind mannan (Man), xylan, glucuronic acid (GlcA) and possibly glucans; Region: CBM35_pectate_lyase-like; cd04082 349520004976 Ca binding site [ion binding]; other site 349520004977 Ca binding site (active) [ion binding]; other site 349520004978 ligand binding site [chemical binding]; other site 349520004979 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 349520004980 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 349520004981 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 349520004982 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 349520004983 Glycerol-1-phosphate dehydrogenase (G1PDH) catalyzes the reversible reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in an NADH-dependent manner; Region: G1PDH; cd08175 349520004984 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 349520004985 active site 349520004986 metal binding site [ion binding]; metal-binding site 349520004987 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520004988 DNA-binding site [nucleotide binding]; DNA binding site 349520004989 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 349520004990 Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AraR; cd01541 349520004991 putative dimerization interface [polypeptide binding]; other site 349520004992 putative ligand binding site [chemical binding]; other site 349520004993 potential frameshift: common BLAST hit: gi|138895448|ref|YP_001125901.1| ribulokinase 349520004994 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 349520004995 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 349520004996 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 349520004997 non-specific DNA binding site [nucleotide binding]; other site 349520004998 salt bridge; other site 349520004999 sequence-specific DNA binding site [nucleotide binding]; other site 349520005000 Nuclease-related domain; Region: NERD; pfam08378 349520005001 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 349520005002 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 349520005003 ATP binding site [chemical binding]; other site 349520005004 Family description; Region: UvrD_C_2; pfam13538 349520005005 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520005006 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 349520005007 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 349520005008 NodB motif; other site 349520005009 active site 349520005010 catalytic site [active] 349520005011 Zn binding site [ion binding]; other site 349520005012 Holin family; Region: Phage_holin_4; pfam05105 349520005013 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 349520005014 Uncharacterized conserved protein [Function unknown]; Region: COG2445 349520005015 Predicted transcriptional regulator [Transcription]; Region: COG2345 349520005016 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; cl17220 349520005017 putative DNA binding site [nucleotide binding]; other site 349520005018 putative Zn2+ binding site [ion binding]; other site 349520005019 Transcriptional regulator PadR-like family; Region: PadR; cl17335 349520005020 YtxH-like protein; Region: YtxH; pfam12732 349520005021 glutamate racemase; Provisional; Region: PRK00865 349520005022 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349520005023 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349520005024 Peptidase M14 carboxypeptidase family-like domain of Endopeptidase I; Region: M14_Endopeptidase_I; cd06229 349520005025 putative active site [active] 349520005026 Zn binding site [ion binding]; other site 349520005027 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 349520005028 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 349520005029 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 349520005030 Sulfatase; Region: Sulfatase; pfam00884 349520005031 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 349520005032 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 349520005033 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 349520005034 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 349520005035 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 349520005036 drug efflux system protein MdtG; Provisional; Region: PRK09874 349520005037 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 349520005038 putative substrate translocation pore; other site 349520005039 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 349520005040 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 349520005041 substrate binding site [chemical binding]; other site 349520005042 active site 349520005043 ferrochelatase; Provisional; Region: PRK12435 349520005044 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 349520005045 C-terminal domain interface [polypeptide binding]; other site 349520005046 active site 349520005047 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 349520005048 active site 349520005049 N-terminal domain interface [polypeptide binding]; other site 349520005050 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 349520005051 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349520005052 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 349520005053 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 349520005054 putative active site [active] 349520005055 putative metal binding site [ion binding]; other site 349520005056 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 349520005057 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 349520005058 active site 349520005059 catalytic site [active] 349520005060 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 349520005061 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 349520005062 Integral membrane protein DUF92; Region: DUF92; pfam01940 349520005063 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520005064 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520005065 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 349520005066 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520005067 Walker A/P-loop; other site 349520005068 ATP binding site [chemical binding]; other site 349520005069 Q-loop/lid; other site 349520005070 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349520005071 ABC transporter signature motif; other site 349520005072 Walker B; other site 349520005073 D-loop; other site 349520005074 ABC transporter; Region: ABC_tran_2; pfam12848 349520005075 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349520005076 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 349520005077 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 349520005078 putative oligomer interface [polypeptide binding]; other site 349520005079 putative active site [active] 349520005080 metal binding site [ion binding]; metal-binding site 349520005081 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 349520005082 oligoendopeptidase F; Region: pepF; TIGR00181 349520005083 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 349520005084 active site 349520005085 Zn binding site [ion binding]; other site 349520005086 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 349520005087 DNA-binding site [nucleotide binding]; DNA binding site 349520005088 RNA-binding motif; other site 349520005089 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 349520005090 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 349520005091 Protein of unknown function (DUF2600); Region: DUF2600; pfam10776 349520005092 6-phosphofructokinase; Provisional; Region: PRK03202 349520005093 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 349520005094 active site 349520005095 ADP/pyrophosphate binding site [chemical binding]; other site 349520005096 dimerization interface [polypeptide binding]; other site 349520005097 allosteric effector site; other site 349520005098 fructose-1,6-bisphosphate binding site; other site 349520005099 Protein of unknown function (DUF3906); Region: DUF3906; pfam13046 349520005100 multidrug efflux protein; Reviewed; Region: PRK01766 349520005101 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 349520005102 cation binding site [ion binding]; other site 349520005103 Putative glycosyl hydrolase domain; Region: DUF4015; pfam13200 349520005104 Uncharacterized conserved protein [Function unknown]; Region: COG1284 349520005105 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 349520005106 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 349520005107 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 349520005108 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 349520005109 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 349520005110 ATP binding site [chemical binding]; other site 349520005111 Mg++ binding site [ion binding]; other site 349520005112 motif III; other site 349520005113 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 349520005114 nucleotide binding region [chemical binding]; other site 349520005115 ATP-binding site [chemical binding]; other site 349520005116 Protein of unknown function, DUF624; Region: DUF624; cl02369 349520005117 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 349520005118 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 349520005119 dimer interface [polypeptide binding]; other site 349520005120 catalytic triad [active] 349520005121 peroxidatic and resolving cysteines [active] 349520005122 Rhomboid family; Region: Rhomboid; pfam01694 349520005123 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520005124 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520005125 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 349520005126 putative dimerization interface [polypeptide binding]; other site 349520005127 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 349520005128 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 349520005129 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 349520005130 DNA binding residues [nucleotide binding] 349520005131 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 349520005132 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 349520005133 metal binding triad; other site 349520005134 hypothetical protein; Provisional; Region: PRK07740 349520005135 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 349520005136 active site 349520005137 catalytic site [active] 349520005138 substrate binding site [chemical binding]; other site 349520005139 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 349520005140 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 349520005141 catalytic residues [active] 349520005142 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 349520005143 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 349520005144 active site 349520005145 catalytic residues [active] 349520005146 metal binding site [ion binding]; metal-binding site 349520005147 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 349520005148 DNA polymerase IV; Validated; Region: PRK01810 349520005149 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 349520005150 active site 349520005151 DNA binding site [nucleotide binding] 349520005152 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 349520005153 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 349520005154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 349520005155 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 349520005156 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 349520005157 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 349520005158 quinone interaction residues [chemical binding]; other site 349520005159 active site 349520005160 catalytic residues [active] 349520005161 FMN binding site [chemical binding]; other site 349520005162 substrate binding site [chemical binding]; other site 349520005163 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 349520005164 synthetase active site [active] 349520005165 NTP binding site [chemical binding]; other site 349520005166 metal binding site [ion binding]; metal-binding site 349520005167 Domain of unknown function (DUF309); Region: DUF309; pfam03745 349520005168 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 349520005169 catalytic residues [active] 349520005170 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 349520005171 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 349520005172 S-adenosylmethionine binding site [chemical binding]; other site 349520005173 Uncharacterized conserved protein [Function unknown]; Region: COG3270 349520005174 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 349520005175 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 349520005176 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 349520005177 RNA binding surface [nucleotide binding]; other site 349520005178 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 349520005179 active site 349520005180 uracil binding [chemical binding]; other site 349520005181 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 349520005182 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349520005183 metal binding site [ion binding]; metal-binding site 349520005184 active site 349520005185 I-site; other site 349520005186 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349520005187 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 349520005188 Uncharacterized membrane protein [Function unknown]; Region: COG3949 349520005189 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 349520005190 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 349520005191 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349520005192 active site 349520005193 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 349520005194 methionine sulfoxide reductase A; Provisional; Region: PRK14054 349520005195 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 349520005196 NodB motif; other site 349520005197 putative active site [active] 349520005198 putative catalytic site [active] 349520005199 Zn binding site [ion binding]; other site 349520005200 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 349520005201 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 349520005202 active site 349520005203 metal binding site [ion binding]; metal-binding site 349520005204 YqzE-like protein; Region: YqzE; pfam14038 349520005205 Bacterial protein YqhG of unknown function; Region: YqhG; pfam11079 349520005206 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 349520005207 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 349520005208 ATP binding site [chemical binding]; other site 349520005209 putative Mg++ binding site [ion binding]; other site 349520005210 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 349520005211 nucleotide binding region [chemical binding]; other site 349520005212 ATP-binding site [chemical binding]; other site 349520005213 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 349520005214 salt bridge; other site 349520005215 non-specific DNA binding site [nucleotide binding]; other site 349520005216 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 349520005217 sequence-specific DNA binding site [nucleotide binding]; other site 349520005218 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 349520005219 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 349520005220 dimer interface [polypeptide binding]; other site 349520005221 active site 349520005222 Predicted transcriptional regulator [Transcription]; Region: COG2378 349520005223 HTH domain; Region: HTH_11; pfam08279 349520005224 WYL domain; Region: WYL; pfam13280 349520005225 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 349520005226 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 349520005227 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 349520005228 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 349520005229 putative substrate translocation pore; other site 349520005230 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520005231 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520005232 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 349520005233 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 349520005234 hypothetical protein; Validated; Region: PRK07682 349520005235 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 349520005236 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520005237 homodimer interface [polypeptide binding]; other site 349520005238 catalytic residue [active] 349520005239 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 349520005240 Protein of unknown function (DUF1361); Region: DUF1361; cl01784 349520005241 Predicted transcriptional regulator [Transcription]; Region: COG4189 349520005242 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 349520005243 dimerization interface [polypeptide binding]; other site 349520005244 putative DNA binding site [nucleotide binding]; other site 349520005245 putative Zn2+ binding site [ion binding]; other site 349520005246 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520005247 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520005248 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520005249 putative PBP binding loops; other site 349520005250 dimer interface [polypeptide binding]; other site 349520005251 ABC-ATPase subunit interface; other site 349520005252 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520005253 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520005254 dimer interface [polypeptide binding]; other site 349520005255 conserved gate region; other site 349520005256 putative PBP binding loops; other site 349520005257 ABC-ATPase subunit interface; other site 349520005258 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 349520005259 substrate binding site [chemical binding]; other site 349520005260 active site 349520005261 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 349520005262 active site 349520005263 hypothetical protein; Provisional; Region: PRK06922 349520005264 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 349520005265 S-adenosylmethionine binding site [chemical binding]; other site 349520005266 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 349520005267 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 349520005268 dimer interface [polypeptide binding]; other site 349520005269 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349520005270 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520005271 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 349520005272 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520005273 putative substrate translocation pore; other site 349520005274 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 349520005275 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 349520005276 dimer interface [polypeptide binding]; other site 349520005277 putative radical transfer pathway; other site 349520005278 diiron center [ion binding]; other site 349520005279 tyrosyl radical; other site 349520005280 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07632 349520005281 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 349520005282 Class I ribonucleotide reductase; Region: RNR_I; cd01679 349520005283 active site 349520005284 dimer interface [polypeptide binding]; other site 349520005285 catalytic residues [active] 349520005286 effector binding site; other site 349520005287 R2 peptide binding site; other site 349520005288 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 349520005289 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 349520005290 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 349520005291 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 349520005292 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 349520005293 A49-like RNA polymerase I associated factor; Region: RNA_pol_I_A49; pfam06870 349520005294 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 349520005295 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 349520005296 FeS/SAM binding site; other site 349520005297 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 349520005298 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 349520005299 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520005300 putative substrate translocation pore; other site 349520005301 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520005302 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520005303 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520005304 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520005305 DNA binding site [nucleotide binding] 349520005306 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 349520005307 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 349520005308 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 349520005309 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 349520005310 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 349520005311 Protein of unknown function (DUF1361); Region: DUF1361; cl01784 349520005312 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 349520005313 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 349520005314 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349520005315 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 349520005316 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 349520005317 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520005318 putative substrate translocation pore; other site 349520005319 Predicted membrane protein [Function unknown]; Region: COG4129 349520005320 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 349520005321 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 349520005322 Part of AAA domain; Region: AAA_19; pfam13245 349520005323 Family description; Region: UvrD_C_2; pfam13538 349520005324 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 349520005325 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 349520005326 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 349520005327 active site 349520005328 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 349520005329 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520005330 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520005331 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520005332 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 349520005333 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 349520005334 dimerization interface [polypeptide binding]; other site 349520005335 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349520005336 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520005337 dimer interface [polypeptide binding]; other site 349520005338 putative CheW interface [polypeptide binding]; other site 349520005339 galactoside permease; Reviewed; Region: lacY; PRK09528 349520005340 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 349520005341 putative substrate translocation pore; other site 349520005342 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 349520005343 Cupin domain; Region: Cupin_2; pfam07883 349520005344 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520005345 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520005346 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520005347 putative alpha-glucosidase; Provisional; Region: PRK10658 349520005348 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 349520005349 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 349520005350 active site 349520005351 homotrimer interface [polypeptide binding]; other site 349520005352 catalytic site [active] 349520005353 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 349520005354 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 349520005355 Beta-lactamase; Region: Beta-lactamase; pfam00144 349520005356 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 349520005357 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 349520005358 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 349520005359 dimerization interface [polypeptide binding]; other site 349520005360 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520005361 dimer interface [polypeptide binding]; other site 349520005362 putative CheW interface [polypeptide binding]; other site 349520005363 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 349520005364 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520005365 putative substrate translocation pore; other site 349520005366 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 349520005367 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520005368 putative substrate translocation pore; other site 349520005369 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520005370 MarR family; Region: MarR; pfam01047 349520005371 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 349520005372 active site 349520005373 intersubunit interactions; other site 349520005374 catalytic residue [active] 349520005375 HTH domain; Region: HTH_11; pfam08279 349520005376 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 349520005377 FOG: CBS domain [General function prediction only]; Region: COG0517 349520005378 TraX protein; Region: TraX; pfam05857 349520005379 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 349520005380 putative active site [active] 349520005381 putative metal binding site [ion binding]; other site 349520005382 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520005383 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 349520005384 acyl-activating enzyme (AAE) consensus motif; other site 349520005385 AMP binding site [chemical binding]; other site 349520005386 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520005387 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 349520005388 thioester reductase domain; Region: Thioester-redct; TIGR01746 349520005389 putative NAD(P) binding site [chemical binding]; other site 349520005390 active site 349520005391 putative substrate binding site [chemical binding]; other site 349520005392 HAMP domain; Region: HAMP; pfam00672 349520005393 dimerization interface [polypeptide binding]; other site 349520005394 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349520005395 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520005396 dimer interface [polypeptide binding]; other site 349520005397 putative CheW interface [polypeptide binding]; other site 349520005398 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520005399 Coenzyme A binding pocket [chemical binding]; other site 349520005400 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 349520005401 tetramer (dimer of dimers) interface [polypeptide binding]; other site 349520005402 active site 349520005403 dimer interface [polypeptide binding]; other site 349520005404 VanZ like family; Region: VanZ; pfam04892 349520005405 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520005406 MarR family; Region: MarR; pfam01047 349520005407 MarR family; Region: MarR_2; cl17246 349520005408 B12 binding domain; Region: B12-binding_2; pfam02607 349520005409 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 349520005410 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cd02065 349520005411 B12 binding site [chemical binding]; other site 349520005412 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520005413 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 349520005414 dimer interface [polypeptide binding]; other site 349520005415 phosphorylation site [posttranslational modification] 349520005416 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 349520005417 ATP binding site [chemical binding]; other site 349520005418 Mg2+ binding site [ion binding]; other site 349520005419 G-X-G motif; other site 349520005420 Response regulator receiver domain; Region: Response_reg; pfam00072 349520005421 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 349520005422 active site 349520005423 phosphorylation site [posttranslational modification] 349520005424 intermolecular recognition site; other site 349520005425 dimerization interface [polypeptide binding]; other site 349520005426 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 349520005427 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520005428 putative substrate translocation pore; other site 349520005429 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 349520005430 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520005431 Coenzyme A binding pocket [chemical binding]; other site 349520005432 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 349520005433 active site 349520005434 oxyanion hole [active] 349520005435 catalytic triad [active] 349520005436 TPR repeat; Region: TPR_11; pfam13414 349520005437 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 349520005438 binding surface 349520005439 TPR motif; other site 349520005440 Uncharacterized conserved protein [Function unknown]; Region: COG5646 349520005441 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 349520005442 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 349520005443 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 349520005444 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 349520005445 dimer interface [polypeptide binding]; other site 349520005446 active site 349520005447 metal binding site [ion binding]; metal-binding site 349520005448 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 349520005449 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520005450 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 349520005451 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 349520005452 putative active site [active] 349520005453 putative FMN binding site [chemical binding]; other site 349520005454 putative substrate binding site [chemical binding]; other site 349520005455 putative catalytic residue [active] 349520005456 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520005457 MarR family; Region: MarR_2; pfam12802 349520005458 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 349520005459 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 349520005460 Transcriptional regulators [Transcription]; Region: MarR; COG1846 349520005461 MarR family; Region: MarR_2; pfam12802 349520005462 EDD domain protein, DegV family; Region: DegV; TIGR00762 349520005463 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 349520005464 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 349520005465 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520005466 putative substrate translocation pore; other site 349520005467 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 349520005468 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 349520005469 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 349520005470 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 349520005471 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 349520005472 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 349520005473 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520005474 Amino acid permease; Region: AA_permease_2; pfam13520 349520005475 Accessory gene regulator B; Region: AgrB; cl01873 349520005476 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 349520005477 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 349520005478 S-adenosylmethionine binding site [chemical binding]; other site 349520005479 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 349520005480 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 349520005481 active site 349520005482 (T/H)XGH motif; other site 349520005483 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 349520005484 Nucleoside recognition; Region: Gate; pfam07670 349520005485 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 349520005486 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 349520005487 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 349520005488 hypothetical protein; Provisional; Region: PRK13670 349520005489 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 349520005490 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 349520005491 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 349520005492 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 349520005493 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 349520005494 active site 2 [active] 349520005495 active site 1 [active] 349520005496 putative phosphate acyltransferase; Provisional; Region: PRK05331 349520005497 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 349520005498 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 349520005499 dimer interface [polypeptide binding]; other site 349520005500 active site 349520005501 CoA binding pocket [chemical binding]; other site 349520005502 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 349520005503 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 349520005504 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 349520005505 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 349520005506 NAD(P) binding site [chemical binding]; other site 349520005507 homotetramer interface [polypeptide binding]; other site 349520005508 homodimer interface [polypeptide binding]; other site 349520005509 active site 349520005510 acyl carrier protein; Provisional; Region: acpP; PRK00982 349520005511 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 349520005512 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 349520005513 dimer interface [polypeptide binding]; other site 349520005514 active site 349520005515 ribonuclease III; Reviewed; Region: rnc; PRK00102 349520005516 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 349520005517 dimerization interface [polypeptide binding]; other site 349520005518 active site 349520005519 metal binding site [ion binding]; metal-binding site 349520005520 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 349520005521 dsRNA binding site [nucleotide binding]; other site 349520005522 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 349520005523 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 349520005524 Walker A/P-loop; other site 349520005525 ATP binding site [chemical binding]; other site 349520005526 Q-loop/lid; other site 349520005527 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 349520005528 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 349520005529 ABC transporter signature motif; other site 349520005530 Walker B; other site 349520005531 D-loop; other site 349520005532 H-loop/switch region; other site 349520005533 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 349520005534 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 349520005535 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 349520005536 P loop; other site 349520005537 GTP binding site [chemical binding]; other site 349520005538 Haemolysin-III related; Region: HlyIII; cl03831 349520005539 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 349520005540 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 349520005541 putative DNA-binding protein; Validated; Region: PRK00118 349520005542 signal recognition particle protein; Provisional; Region: PRK10867 349520005543 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 349520005544 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 349520005545 P loop; other site 349520005546 GTP binding site [chemical binding]; other site 349520005547 Signal peptide binding domain; Region: SRP_SPB; pfam02978 349520005548 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 349520005549 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 349520005550 hypothetical protein; Provisional; Region: PRK00468 349520005551 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 349520005552 RimM N-terminal domain; Region: RimM; pfam01782 349520005553 PRC-barrel domain; Region: PRC; pfam05239 349520005554 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 349520005555 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 349520005556 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 349520005557 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 349520005558 Catalytic site [active] 349520005559 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 349520005560 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 349520005561 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 349520005562 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 349520005563 GTP/Mg2+ binding site [chemical binding]; other site 349520005564 G4 box; other site 349520005565 G5 box; other site 349520005566 G1 box; other site 349520005567 Switch I region; other site 349520005568 G2 box; other site 349520005569 G3 box; other site 349520005570 Switch II region; other site 349520005571 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 349520005572 RNA/DNA hybrid binding site [nucleotide binding]; other site 349520005573 active site 349520005574 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 349520005575 hypothetical protein; Reviewed; Region: PRK12497 349520005576 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 349520005577 putative FMN binding site [chemical binding]; other site 349520005578 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 349520005579 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 349520005580 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 349520005581 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 349520005582 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 349520005583 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520005584 MarR family; Region: MarR; pfam01047 349520005585 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 349520005586 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 349520005587 CoA-ligase; Region: Ligase_CoA; pfam00549 349520005588 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 349520005589 CoA binding domain; Region: CoA_binding; smart00881 349520005590 CoA-ligase; Region: Ligase_CoA; pfam00549 349520005591 DNA protecting protein DprA; Region: dprA; TIGR00732 349520005592 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 349520005593 DNA topoisomerase I; Validated; Region: PRK05582 349520005594 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 349520005595 active site 349520005596 interdomain interaction site; other site 349520005597 putative metal-binding site [ion binding]; other site 349520005598 nucleotide binding site [chemical binding]; other site 349520005599 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 349520005600 domain I; other site 349520005601 DNA binding groove [nucleotide binding] 349520005602 phosphate binding site [ion binding]; other site 349520005603 domain II; other site 349520005604 domain III; other site 349520005605 nucleotide binding site [chemical binding]; other site 349520005606 catalytic site [active] 349520005607 domain IV; other site 349520005608 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 349520005609 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 349520005610 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 349520005611 Glucose inhibited division protein A; Region: GIDA; pfam01134 349520005612 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 349520005613 active site 349520005614 HslU subunit interaction site [polypeptide binding]; other site 349520005615 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 349520005616 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 349520005617 Walker A motif; other site 349520005618 ATP binding site [chemical binding]; other site 349520005619 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 349520005620 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 349520005621 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 349520005622 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 349520005623 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 349520005624 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 349520005625 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 349520005626 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 349520005627 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 349520005628 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 349520005629 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 349520005630 FliG C-terminal domain; Region: FliG_C; pfam01706 349520005631 Flagellar assembly protein FliH; Region: FliH; pfam02108 349520005632 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07721 349520005633 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 349520005634 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 349520005635 Walker A motif/ATP binding site; other site 349520005636 Walker B motif; other site 349520005637 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 349520005638 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK07720 349520005639 Uncharacterized conserved protein [Function unknown]; Region: COG3334 349520005640 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 349520005641 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 349520005642 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 349520005643 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 349520005644 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 349520005645 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 349520005646 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 349520005647 Flagellar protein (FlbD); Region: FlbD; pfam06289 349520005648 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 349520005649 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 349520005650 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 349520005651 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 349520005652 CheC-like family; Region: CheC; pfam04509 349520005653 flagellar motor switch protein FliN; Region: fliN; TIGR02480 349520005654 Response regulator receiver domain; Region: Response_reg; pfam00072 349520005655 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 349520005656 active site 349520005657 phosphorylation site [posttranslational modification] 349520005658 intermolecular recognition site; other site 349520005659 dimerization interface [polypeptide binding]; other site 349520005660 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 349520005661 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 349520005662 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 349520005663 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 349520005664 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 349520005665 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 349520005666 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 349520005667 FHIPEP family; Region: FHIPEP; pfam00771 349520005668 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 349520005669 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 349520005670 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 349520005671 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 349520005672 P-loop; other site 349520005673 Response regulator receiver domain; Region: Response_reg; pfam00072 349520005674 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 349520005675 active site 349520005676 phosphorylation site [posttranslational modification] 349520005677 intermolecular recognition site; other site 349520005678 dimerization interface [polypeptide binding]; other site 349520005679 CheB methylesterase; Region: CheB_methylest; pfam01339 349520005680 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 349520005681 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 349520005682 putative binding surface; other site 349520005683 active site 349520005684 P2 response regulator binding domain; Region: P2; pfam07194 349520005685 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 349520005686 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 349520005687 ATP binding site [chemical binding]; other site 349520005688 Mg2+ binding site [ion binding]; other site 349520005689 G-X-G motif; other site 349520005690 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 349520005691 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 349520005692 putative CheA interaction surface; other site 349520005693 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 349520005694 CheC-like family; Region: CheC; pfam04509 349520005695 CheC-like family; Region: CheC; pfam04509 349520005696 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 349520005697 RNA polymerase sigma factor SigD; Validated; Region: PRK07670 349520005698 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349520005699 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 349520005700 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 349520005701 DNA binding residues [nucleotide binding] 349520005702 Protein of unknown function (DUF342); Region: DUF342; pfam03961 349520005703 YceG-like family; Region: YceG; pfam02618 349520005704 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 349520005705 rRNA interaction site [nucleotide binding]; other site 349520005706 S8 interaction site; other site 349520005707 putative laminin-1 binding site; other site 349520005708 elongation factor Ts; Reviewed; Region: tsf; PRK12332 349520005709 UBA/TS-N domain; Region: UBA; pfam00627 349520005710 Elongation factor TS; Region: EF_TS; pfam00889 349520005711 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 349520005712 putative nucleotide binding site [chemical binding]; other site 349520005713 uridine monophosphate binding site [chemical binding]; other site 349520005714 homohexameric interface [polypeptide binding]; other site 349520005715 ribosome recycling factor; Reviewed; Region: frr; PRK00083 349520005716 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 349520005717 hinge region; other site 349520005718 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 349520005719 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 349520005720 catalytic residue [active] 349520005721 putative FPP diphosphate binding site; other site 349520005722 putative FPP binding hydrophobic cleft; other site 349520005723 dimer interface [polypeptide binding]; other site 349520005724 putative IPP diphosphate binding site; other site 349520005725 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 349520005726 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 349520005727 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 349520005728 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 349520005729 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 349520005730 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 349520005731 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 349520005732 RIP metalloprotease RseP; Region: TIGR00054 349520005733 active site 349520005734 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 349520005735 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 349520005736 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 349520005737 putative substrate binding region [chemical binding]; other site 349520005738 prolyl-tRNA synthetase; Provisional; Region: PRK08661 349520005739 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 349520005740 dimer interface [polypeptide binding]; other site 349520005741 motif 1; other site 349520005742 active site 349520005743 motif 2; other site 349520005744 motif 3; other site 349520005745 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 349520005746 anticodon binding site; other site 349520005747 zinc-binding site [ion binding]; other site 349520005748 DNA polymerase III PolC; Validated; Region: polC; PRK00448 349520005749 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 349520005750 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 349520005751 generic binding surface II; other site 349520005752 generic binding surface I; other site 349520005753 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 349520005754 active site 349520005755 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 349520005756 active site 349520005757 catalytic site [active] 349520005758 substrate binding site [chemical binding]; other site 349520005759 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 349520005760 ribosome maturation protein RimP; Reviewed; Region: PRK00092 349520005761 Sm and related proteins; Region: Sm_like; cl00259 349520005762 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 349520005763 putative oligomer interface [polypeptide binding]; other site 349520005764 putative RNA binding site [nucleotide binding]; other site 349520005765 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 349520005766 NusA N-terminal domain; Region: NusA_N; pfam08529 349520005767 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 349520005768 RNA binding site [nucleotide binding]; other site 349520005769 homodimer interface [polypeptide binding]; other site 349520005770 NusA-like KH domain; Region: KH_5; pfam13184 349520005771 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 349520005772 G-X-X-G motif; other site 349520005773 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 349520005774 putative RNA binding cleft [nucleotide binding]; other site 349520005775 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 349520005776 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 349520005777 translation initiation factor IF-2; Region: IF-2; TIGR00487 349520005778 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 349520005779 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 349520005780 G1 box; other site 349520005781 putative GEF interaction site [polypeptide binding]; other site 349520005782 GTP/Mg2+ binding site [chemical binding]; other site 349520005783 Switch I region; other site 349520005784 G2 box; other site 349520005785 G3 box; other site 349520005786 Switch II region; other site 349520005787 G4 box; other site 349520005788 G5 box; other site 349520005789 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 349520005790 Translation-initiation factor 2; Region: IF-2; pfam11987 349520005791 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 349520005792 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 349520005793 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 349520005794 DHH family; Region: DHH; pfam01368 349520005795 DHHA1 domain; Region: DHHA1; pfam02272 349520005796 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 349520005797 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 349520005798 RNA binding site [nucleotide binding]; other site 349520005799 active site 349520005800 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 349520005801 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 349520005802 active site 349520005803 Riboflavin kinase; Region: Flavokinase; pfam01687 349520005804 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 349520005805 16S/18S rRNA binding site [nucleotide binding]; other site 349520005806 S13e-L30e interaction site [polypeptide binding]; other site 349520005807 25S rRNA binding site [nucleotide binding]; other site 349520005808 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 349520005809 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 349520005810 RNase E interface [polypeptide binding]; other site 349520005811 trimer interface [polypeptide binding]; other site 349520005812 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 349520005813 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 349520005814 RNase E interface [polypeptide binding]; other site 349520005815 trimer interface [polypeptide binding]; other site 349520005816 active site 349520005817 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 349520005818 putative nucleic acid binding region [nucleotide binding]; other site 349520005819 G-X-X-G motif; other site 349520005820 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 349520005821 RNA binding site [nucleotide binding]; other site 349520005822 domain interface; other site 349520005823 probable sporulation protein, polysaccharide deacetylase family; Region: spore_ylxY; TIGR02873 349520005824 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 349520005825 NodB motif; other site 349520005826 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 349520005827 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 349520005828 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 349520005829 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 349520005830 trimer interface [polypeptide binding]; other site 349520005831 active site 349520005832 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 349520005833 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 349520005834 NAD binding site [chemical binding]; other site 349520005835 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 349520005836 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 349520005837 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 349520005838 aspartate kinase I; Reviewed; Region: PRK08210 349520005839 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 349520005840 nucleotide binding site [chemical binding]; other site 349520005841 substrate binding site [chemical binding]; other site 349520005842 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 349520005843 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 349520005844 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 349520005845 dihydrodipicolinate synthase; Region: dapA; TIGR00674 349520005846 dimer interface [polypeptide binding]; other site 349520005847 active site 349520005848 catalytic residue [active] 349520005849 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 349520005850 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 349520005851 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 349520005852 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 349520005853 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 349520005854 active site 349520005855 YlzJ-like protein; Region: YlzJ; pfam14035 349520005856 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 349520005857 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 349520005858 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 349520005859 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 349520005860 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 349520005861 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 349520005862 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 349520005863 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 349520005864 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 349520005865 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 349520005866 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 349520005867 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 349520005868 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 349520005869 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520005870 NAD(P) binding site [chemical binding]; other site 349520005871 active site 349520005872 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 349520005873 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 349520005874 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 349520005875 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 349520005876 non-specific DNA binding site [nucleotide binding]; other site 349520005877 salt bridge; other site 349520005878 sequence-specific DNA binding site [nucleotide binding]; other site 349520005879 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 349520005880 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 349520005881 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 349520005882 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 349520005883 competence damage-inducible protein A; Provisional; Region: PRK00549 349520005884 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 349520005885 putative MPT binding site; other site 349520005886 Competence-damaged protein; Region: CinA; pfam02464 349520005887 recombinase A; Provisional; Region: recA; PRK09354 349520005888 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 349520005889 hexamer interface [polypeptide binding]; other site 349520005890 Walker A motif; other site 349520005891 ATP binding site [chemical binding]; other site 349520005892 Walker B motif; other site 349520005893 RecX family; Region: RecX; cl00936 349520005894 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 349520005895 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 349520005896 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 349520005897 Zn2+ binding site [ion binding]; other site 349520005898 Mg2+ binding site [ion binding]; other site 349520005899 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 349520005900 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349520005901 putative active site [active] 349520005902 metal binding site [ion binding]; metal-binding site 349520005903 homodimer binding site [polypeptide binding]; other site 349520005904 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 349520005905 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 349520005906 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 349520005907 active site 349520005908 dimer interface [polypeptide binding]; other site 349520005909 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 349520005910 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 349520005911 Propanediol utilisation protein PduL; Region: PduL; pfam06130 349520005912 Propanediol utilisation protein PduL; Region: PduL; pfam06130 349520005913 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 349520005914 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 349520005915 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 349520005916 FeS/SAM binding site; other site 349520005917 Protein of unknown function (DUF964); Region: DUF964; cl01483 349520005918 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 349520005919 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 349520005920 CoenzymeA binding site [chemical binding]; other site 349520005921 subunit interaction site [polypeptide binding]; other site 349520005922 PHB binding site; other site 349520005923 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 349520005924 nudix motif; other site 349520005925 Isochorismatase family; Region: Isochorismatase; pfam00857 349520005926 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 349520005927 catalytic triad [active] 349520005928 conserved cis-peptide bond; other site 349520005929 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 349520005930 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 349520005931 active site 349520005932 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 349520005933 MPT binding site; other site 349520005934 trimer interface [polypeptide binding]; other site 349520005935 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 349520005936 dimerization interface [polypeptide binding]; other site 349520005937 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 349520005938 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 349520005939 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 349520005940 active site 349520005941 HIGH motif; other site 349520005942 KMSK motif region; other site 349520005943 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 349520005944 tRNA binding surface [nucleotide binding]; other site 349520005945 anticodon binding site; other site 349520005946 S-layer homology domain; Region: SLH; pfam00395 349520005947 PrcB C-terminal; Region: PrcB_C; pfam14343 349520005948 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349520005949 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520005950 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 349520005951 Walker A/P-loop; other site 349520005952 ATP binding site [chemical binding]; other site 349520005953 Q-loop/lid; other site 349520005954 ABC transporter signature motif; other site 349520005955 Walker B; other site 349520005956 D-loop; other site 349520005957 H-loop/switch region; other site 349520005958 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520005959 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 349520005960 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520005961 Walker A/P-loop; other site 349520005962 ATP binding site [chemical binding]; other site 349520005963 Q-loop/lid; other site 349520005964 ABC transporter signature motif; other site 349520005965 Walker B; other site 349520005966 D-loop; other site 349520005967 H-loop/switch region; other site 349520005968 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4841 349520005969 Predicted membrane protein [Function unknown]; Region: COG2707 349520005970 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 349520005971 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 349520005972 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349520005973 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 349520005974 putative DNA binding site [nucleotide binding]; other site 349520005975 dimerization interface [polypeptide binding]; other site 349520005976 putative Zn2+ binding site [ion binding]; other site 349520005977 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; cl01589 349520005978 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 349520005979 ribosome small subunit-dependent GTPase A; Region: TIGR00157 349520005980 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 349520005981 GTPase/Zn-binding domain interface [polypeptide binding]; other site 349520005982 GTP/Mg2+ binding site [chemical binding]; other site 349520005983 G4 box; other site 349520005984 G5 box; other site 349520005985 G1 box; other site 349520005986 Switch I region; other site 349520005987 G2 box; other site 349520005988 G3 box; other site 349520005989 Switch II region; other site 349520005990 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 349520005991 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 349520005992 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 349520005993 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 349520005994 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 349520005995 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 349520005996 Proteins of 100 residues with WXG; Region: WXG100; pfam06013 349520005997 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 349520005998 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 349520005999 metal ion-dependent adhesion site (MIDAS); other site 349520006000 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 349520006001 active site 349520006002 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 349520006003 classical (c) SDRs; Region: SDR_c; cd05233 349520006004 NAD(P) binding site [chemical binding]; other site 349520006005 active site 349520006006 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 349520006007 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520006008 DNA-binding site [nucleotide binding]; DNA binding site 349520006009 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 349520006010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520006011 homodimer interface [polypeptide binding]; other site 349520006012 catalytic residue [active] 349520006013 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 349520006014 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 349520006015 ATP-grasp domain; Region: ATP-grasp_4; cl17255 349520006016 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 349520006017 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 349520006018 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520006019 homodimer interface [polypeptide binding]; other site 349520006020 catalytic residue [active] 349520006021 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520006022 Uncharacterized proteins similar to Bacillus subtilis YncM; Region: YncM_like; cd13427 349520006023 putative binding site; other site 349520006024 putative dimer interface [polypeptide binding]; other site 349520006025 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 349520006026 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 349520006027 potential frameshift: common BLAST hit: gi|261407811|ref|YP_003244052.1| hypothetical protein 349520006028 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 349520006029 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 349520006030 non-specific DNA binding site [nucleotide binding]; other site 349520006031 salt bridge; other site 349520006032 sequence-specific DNA binding site [nucleotide binding]; other site 349520006033 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 349520006034 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 349520006035 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 349520006036 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 349520006037 active site 349520006038 HIGH motif; other site 349520006039 nucleotide binding site [chemical binding]; other site 349520006040 active site 349520006041 KMSKS motif; other site 349520006042 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 349520006043 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 349520006044 ATP binding site [chemical binding]; other site 349520006045 putative Mg++ binding site [ion binding]; other site 349520006046 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 349520006047 nucleotide binding region [chemical binding]; other site 349520006048 ATP-binding site [chemical binding]; other site 349520006049 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 349520006050 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 349520006051 Heat induced stress protein YflT; Region: YflT; pfam11181 349520006052 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 349520006053 Acyltransferase family; Region: Acyl_transf_3; pfam01757 349520006054 Replication terminator protein; Region: RTP; pfam02334 349520006055 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349520006056 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349520006057 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 349520006058 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 349520006059 DivIVA protein; Region: DivIVA; pfam05103 349520006060 DivIVA domain; Region: DivI1A_domain; TIGR03544 349520006061 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 349520006062 Rrf2 family protein; Region: rrf2_super; TIGR00738 349520006063 Transcriptional regulator; Region: Rrf2; pfam02082 349520006064 Transcriptional regulator; Region: Rrf2; cl17282 349520006065 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 349520006066 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349520006067 active site 349520006068 metal binding site [ion binding]; metal-binding site 349520006069 homotetramer interface [polypeptide binding]; other site 349520006070 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 349520006071 dimer interface [polypeptide binding]; other site 349520006072 [2Fe-2S] cluster binding site [ion binding]; other site 349520006073 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 349520006074 dimer interface [polypeptide binding]; other site 349520006075 FMN binding site [chemical binding]; other site 349520006076 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 349520006077 Predicted transcriptional regulators [Transcription]; Region: COG1733 349520006078 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 349520006079 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 349520006080 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 349520006081 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 349520006082 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 349520006083 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 349520006084 Uncharacterized conserved protein [Function unknown]; Region: COG2135 349520006085 benzoate transport; Region: 2A0115; TIGR00895 349520006086 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 349520006087 putative substrate translocation pore; other site 349520006088 OsmC-like protein; Region: OsmC; cl00767 349520006089 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 349520006090 azoreductase; Provisional; Region: PRK13556 349520006091 glutamate racemase; Provisional; Region: PRK00865 349520006092 Phosphotransferase enzyme family; Region: APH; pfam01636 349520006093 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 349520006094 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 349520006095 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 349520006096 putative substrate translocation pore; other site 349520006097 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520006098 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520006099 DNA binding site [nucleotide binding] 349520006100 domain linker motif; other site 349520006101 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 349520006102 dimerization interface [polypeptide binding]; other site 349520006103 ligand binding site [chemical binding]; other site 349520006104 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 349520006105 MFS/sugar transport protein; Region: MFS_2; pfam13347 349520006106 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 349520006107 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 349520006108 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 349520006109 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 349520006110 active site 349520006111 catalytic residues [active] 349520006112 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 349520006113 acetolactate synthase; Reviewed; Region: PRK08617 349520006114 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 349520006115 PYR/PP interface [polypeptide binding]; other site 349520006116 dimer interface [polypeptide binding]; other site 349520006117 TPP binding site [chemical binding]; other site 349520006118 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 349520006119 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 349520006120 TPP-binding site [chemical binding]; other site 349520006121 dimer interface [polypeptide binding]; other site 349520006122 Glucuronate isomerase; Region: UxaC; pfam02614 349520006123 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 349520006124 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 349520006125 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 349520006126 putative substrate translocation pore; other site 349520006127 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520006128 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520006129 DNA binding site [nucleotide binding] 349520006130 domain linker motif; other site 349520006131 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 349520006132 dimerization interface [polypeptide binding]; other site 349520006133 ligand binding site [chemical binding]; other site 349520006134 pyruvate dehydrogenase; Provisional; Region: PRK09124 349520006135 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 349520006136 PYR/PP interface [polypeptide binding]; other site 349520006137 dimer interface [polypeptide binding]; other site 349520006138 tetramer interface [polypeptide binding]; other site 349520006139 TPP binding site [chemical binding]; other site 349520006140 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 349520006141 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 349520006142 TPP-binding site [chemical binding]; other site 349520006143 altronate oxidoreductase; Provisional; Region: PRK03643 349520006144 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 349520006145 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 349520006146 galactarate dehydratase; Region: galactar-dH20; TIGR03248 349520006147 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 349520006148 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 349520006149 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 349520006150 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520006151 dimer interface [polypeptide binding]; other site 349520006152 conserved gate region; other site 349520006153 ABC-ATPase subunit interface; other site 349520006154 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520006155 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520006156 dimer interface [polypeptide binding]; other site 349520006157 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349520006158 ABC-ATPase subunit interface; other site 349520006159 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520006160 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 349520006161 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 349520006162 dimerization interface [polypeptide binding]; other site 349520006163 Histidine kinase; Region: His_kinase; pfam06580 349520006164 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 349520006165 ATP binding site [chemical binding]; other site 349520006166 Mg2+ binding site [ion binding]; other site 349520006167 G-X-G motif; other site 349520006168 Response regulator receiver domain; Region: Response_reg; pfam00072 349520006169 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 349520006170 active site 349520006171 phosphorylation site [posttranslational modification] 349520006172 intermolecular recognition site; other site 349520006173 dimerization interface [polypeptide binding]; other site 349520006174 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520006175 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520006176 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520006177 Protein of unknown function (DUF3891); Region: DUF3891; pfam13030 349520006178 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 349520006179 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 349520006180 ligand binding site; other site 349520006181 oligomer interface; other site 349520006182 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 349520006183 dimer interface [polypeptide binding]; other site 349520006184 N-terminal domain interface [polypeptide binding]; other site 349520006185 sulfate 1 binding site; other site 349520006186 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 349520006187 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 349520006188 ligand binding site; other site 349520006189 oligomer interface; other site 349520006190 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 349520006191 dimer interface [polypeptide binding]; other site 349520006192 N-terminal domain interface [polypeptide binding]; other site 349520006193 sulfate 1 binding site; other site 349520006194 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 349520006195 homodimer interface [polypeptide binding]; other site 349520006196 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 349520006197 active site pocket [active] 349520006198 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 349520006199 Predicted membrane protein [Function unknown]; Region: COG1511 349520006200 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 349520006201 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 349520006202 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 349520006203 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349520006204 active site 349520006205 catalytic tetrad [active] 349520006206 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 349520006207 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 349520006208 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 349520006209 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520006210 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520006211 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 349520006212 dimerization interface [polypeptide binding]; other site 349520006213 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 349520006214 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520006215 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 349520006216 ATP binding site [chemical binding]; other site 349520006217 Mg2+ binding site [ion binding]; other site 349520006218 G-X-G motif; other site 349520006219 Predicted membrane protein [Function unknown]; Region: COG2323 349520006220 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 349520006221 catalytic residues [active] 349520006222 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 349520006223 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 349520006224 active site 349520006225 non-prolyl cis peptide bond; other site 349520006226 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 349520006227 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 349520006228 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520006229 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520006230 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 349520006231 dimerization interface [polypeptide binding]; other site 349520006232 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349520006233 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 349520006234 substrate binding pocket [chemical binding]; other site 349520006235 membrane-bound complex binding site; other site 349520006236 hinge residues; other site 349520006237 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520006238 dimer interface [polypeptide binding]; other site 349520006239 conserved gate region; other site 349520006240 putative PBP binding loops; other site 349520006241 ABC-ATPase subunit interface; other site 349520006242 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349520006243 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520006244 dimer interface [polypeptide binding]; other site 349520006245 conserved gate region; other site 349520006246 putative PBP binding loops; other site 349520006247 ABC-ATPase subunit interface; other site 349520006248 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349520006249 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 349520006250 Walker A/P-loop; other site 349520006251 ATP binding site [chemical binding]; other site 349520006252 Q-loop/lid; other site 349520006253 ABC transporter signature motif; other site 349520006254 Walker B; other site 349520006255 D-loop; other site 349520006256 H-loop/switch region; other site 349520006257 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 349520006258 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 349520006259 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 349520006260 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 349520006261 metal binding site [ion binding]; metal-binding site 349520006262 dimer interface [polypeptide binding]; other site 349520006263 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 349520006264 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 349520006265 dimerization interface [polypeptide binding]; other site 349520006266 putative DNA binding site [nucleotide binding]; other site 349520006267 putative Zn2+ binding site [ion binding]; other site 349520006268 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 349520006269 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 349520006270 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349520006271 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520006272 dimer interface [polypeptide binding]; other site 349520006273 conserved gate region; other site 349520006274 putative PBP binding loops; other site 349520006275 ABC-ATPase subunit interface; other site 349520006276 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 349520006277 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 349520006278 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520006279 dimer interface [polypeptide binding]; other site 349520006280 conserved gate region; other site 349520006281 putative PBP binding loops; other site 349520006282 ABC-ATPase subunit interface; other site 349520006283 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 349520006284 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349520006285 Walker A/P-loop; other site 349520006286 ATP binding site [chemical binding]; other site 349520006287 Q-loop/lid; other site 349520006288 ABC transporter signature motif; other site 349520006289 Walker B; other site 349520006290 D-loop; other site 349520006291 H-loop/switch region; other site 349520006292 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 349520006293 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 349520006294 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349520006295 Walker A/P-loop; other site 349520006296 ATP binding site [chemical binding]; other site 349520006297 Q-loop/lid; other site 349520006298 ABC transporter signature motif; other site 349520006299 Walker B; other site 349520006300 D-loop; other site 349520006301 H-loop/switch region; other site 349520006302 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 349520006303 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 349520006304 4Fe-4S binding domain; Region: Fer4_5; pfam12801 349520006305 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 349520006306 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 349520006307 dimerization interface [polypeptide binding]; other site 349520006308 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 349520006309 dimer interface [polypeptide binding]; other site 349520006310 phosphorylation site [posttranslational modification] 349520006311 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 349520006312 ATP binding site [chemical binding]; other site 349520006313 Mg2+ binding site [ion binding]; other site 349520006314 G-X-G motif; other site 349520006315 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 349520006316 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 349520006317 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 349520006318 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 349520006319 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520006320 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 349520006321 active site 349520006322 phosphorylation site [posttranslational modification] 349520006323 intermolecular recognition site; other site 349520006324 dimerization interface [polypeptide binding]; other site 349520006325 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 349520006326 DNA binding site [nucleotide binding] 349520006327 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 349520006328 Cation efflux family; Region: Cation_efflux; pfam01545 349520006329 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 349520006330 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 349520006331 RDD family; Region: RDD; pfam06271 349520006332 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 349520006333 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 349520006334 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 349520006335 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 349520006336 dimer interface [polypeptide binding]; other site 349520006337 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520006338 catalytic residue [active] 349520006339 cystathionine beta-lyase; Provisional; Region: PRK07671 349520006340 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 349520006341 homodimer interface [polypeptide binding]; other site 349520006342 substrate-cofactor binding pocket; other site 349520006343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520006344 catalytic residue [active] 349520006345 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 349520006346 Nucleolar RNA-binding protein, Nop10p family; Region: Nop10p; cl00977 349520006347 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 349520006348 metal ion-dependent adhesion site (MIDAS); other site 349520006349 Tubulin like; Region: Tubulin_2; pfam13809 349520006350 Tubulin like; Region: Tubulin_2; pfam13809 349520006351 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 349520006352 metal ion-dependent adhesion site (MIDAS); other site 349520006353 Transcriptional regulators [Transcription]; Region: MarR; COG1846 349520006354 MarR family; Region: MarR_2; pfam12802 349520006355 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 349520006356 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520006357 putative substrate translocation pore; other site 349520006358 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 349520006359 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 349520006360 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 349520006361 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 349520006362 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 349520006363 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 349520006364 TIGR03943 family protein; Region: TIGR03943 349520006365 Predicted permeases [General function prediction only]; Region: COG0701 349520006366 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 349520006367 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 349520006368 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 349520006369 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 349520006370 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 349520006371 ABC-ATPase subunit interface; other site 349520006372 dimer interface [polypeptide binding]; other site 349520006373 putative PBP binding regions; other site 349520006374 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 349520006375 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 349520006376 putative ligand binding residues [chemical binding]; other site 349520006377 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 349520006378 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 349520006379 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 349520006380 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 349520006381 ABC-ATPase subunit interface; other site 349520006382 dimer interface [polypeptide binding]; other site 349520006383 putative PBP binding regions; other site 349520006384 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 349520006385 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 349520006386 metal binding site [ion binding]; metal-binding site 349520006387 Response regulator receiver domain; Region: Response_reg; pfam00072 349520006388 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 349520006389 active site 349520006390 phosphorylation site [posttranslational modification] 349520006391 intermolecular recognition site; other site 349520006392 dimerization interface [polypeptide binding]; other site 349520006393 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349520006394 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_16; cd07263 349520006395 WYL domain; Region: WYL; cl14852 349520006396 YolD-like protein; Region: YolD; pfam08863 349520006397 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 349520006398 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 349520006399 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520006400 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 349520006401 active site 349520006402 phosphorylation site [posttranslational modification] 349520006403 intermolecular recognition site; other site 349520006404 dimerization interface [polypeptide binding]; other site 349520006405 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 349520006406 DNA binding site [nucleotide binding] 349520006407 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520006408 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 349520006409 dimerization interface [polypeptide binding]; other site 349520006410 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 349520006411 dimer interface [polypeptide binding]; other site 349520006412 phosphorylation site [posttranslational modification] 349520006413 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 349520006414 ATP binding site [chemical binding]; other site 349520006415 Mg2+ binding site [ion binding]; other site 349520006416 G-X-G motif; other site 349520006417 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 349520006418 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 349520006419 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 349520006420 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520006421 Walker A/P-loop; other site 349520006422 ATP binding site [chemical binding]; other site 349520006423 Q-loop/lid; other site 349520006424 ABC transporter signature motif; other site 349520006425 Walker B; other site 349520006426 D-loop; other site 349520006427 H-loop/switch region; other site 349520006428 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 349520006429 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 349520006430 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 349520006431 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 349520006432 dimerization interface [polypeptide binding]; other site 349520006433 domain crossover interface; other site 349520006434 redox-dependent activation switch; other site 349520006435 Predicted transcriptional regulator [Transcription]; Region: COG1959 349520006436 Transcriptional regulator; Region: Rrf2; pfam02082 349520006437 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 349520006438 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 349520006439 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 349520006440 short chain dehydrogenase; Validated; Region: PRK08324 349520006441 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 349520006442 active site 349520006443 intersubunit interface [polypeptide binding]; other site 349520006444 Zn2+ binding site [ion binding]; other site 349520006445 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 349520006446 putative NAD(P) binding site [chemical binding]; other site 349520006447 active site 349520006448 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 349520006449 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 349520006450 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 349520006451 N- and C-terminal domain interface [polypeptide binding]; other site 349520006452 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 349520006453 active site 349520006454 putative catalytic site [active] 349520006455 metal binding site [ion binding]; metal-binding site 349520006456 ATP binding site [chemical binding]; other site 349520006457 carbohydrate binding site [chemical binding]; other site 349520006458 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 349520006459 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 349520006460 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 349520006461 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 349520006462 Cysteine-rich domain; Region: CCG; pfam02754 349520006463 Cysteine-rich domain; Region: CCG; pfam02754 349520006464 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 349520006465 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 349520006466 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 349520006467 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 349520006468 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 349520006469 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520006470 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 349520006471 dimerization interface [polypeptide binding]; other site 349520006472 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 349520006473 dimer interface [polypeptide binding]; other site 349520006474 phosphorylation site [posttranslational modification] 349520006475 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 349520006476 Mg2+ binding site [ion binding]; other site 349520006477 G-X-G motif; other site 349520006478 Acyltransferase family; Region: Acyl_transf_3; pfam01757 349520006479 CHRD domain; Region: CHRD; pfam07452 349520006480 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 349520006481 active site 349520006482 catalytic triad [active] 349520006483 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 349520006484 DNA binding site [nucleotide binding] 349520006485 active site 349520006486 Outer membrane efflux protein; Region: OEP; pfam02321 349520006487 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349520006488 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 349520006489 HlyD family secretion protein; Region: HlyD_3; pfam13437 349520006490 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 349520006491 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 349520006492 Walker A/P-loop; other site 349520006493 ATP binding site [chemical binding]; other site 349520006494 Q-loop/lid; other site 349520006495 ABC transporter signature motif; other site 349520006496 Walker B; other site 349520006497 D-loop; other site 349520006498 H-loop/switch region; other site 349520006499 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 349520006500 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 349520006501 FtsX-like permease family; Region: FtsX; pfam02687 349520006502 HTH domain; Region: HTH_11; cl17392 349520006503 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 349520006504 FOG: CBS domain [General function prediction only]; Region: COG0517 349520006505 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 349520006506 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 349520006507 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 349520006508 putative active site [active] 349520006509 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349520006510 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349520006511 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 349520006512 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349520006513 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520006514 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520006515 Walker A/P-loop; other site 349520006516 ATP binding site [chemical binding]; other site 349520006517 Q-loop/lid; other site 349520006518 ABC transporter signature motif; other site 349520006519 Walker B; other site 349520006520 D-loop; other site 349520006521 H-loop/switch region; other site 349520006522 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349520006523 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520006524 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 349520006525 Walker A/P-loop; other site 349520006526 ATP binding site [chemical binding]; other site 349520006527 Q-loop/lid; other site 349520006528 ABC transporter signature motif; other site 349520006529 Walker B; other site 349520006530 D-loop; other site 349520006531 H-loop/switch region; other site 349520006532 Condensation domain; Region: Condensation; pfam00668 349520006533 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 349520006534 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 349520006535 acyl-activating enzyme (AAE) consensus motif; other site 349520006536 AMP binding site [chemical binding]; other site 349520006537 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520006538 Condensation domain; Region: Condensation; pfam00668 349520006539 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520006540 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 349520006541 Condensation domain; Region: Condensation; pfam00668 349520006542 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520006543 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 349520006544 AMP-binding enzyme; Region: AMP-binding; pfam00501 349520006545 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520006546 acyl-activating enzyme (AAE) consensus motif; other site 349520006547 AMP binding site [chemical binding]; other site 349520006548 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520006549 Condensation domain; Region: Condensation; pfam00668 349520006550 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520006551 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 349520006552 Condensation domain; Region: Condensation; pfam00668 349520006553 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520006554 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520006555 acyl-activating enzyme (AAE) consensus motif; other site 349520006556 AMP binding site [chemical binding]; other site 349520006557 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520006558 Condensation domain; Region: Condensation; pfam00668 349520006559 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520006560 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 349520006561 Condensation domain; Region: Condensation; pfam00668 349520006562 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520006563 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520006564 acyl-activating enzyme (AAE) consensus motif; other site 349520006565 AMP binding site [chemical binding]; other site 349520006566 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520006567 Condensation domain; Region: Condensation; pfam00668 349520006568 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520006569 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 349520006570 Condensation domain; Region: Condensation; pfam00668 349520006571 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520006572 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520006573 acyl-activating enzyme (AAE) consensus motif; other site 349520006574 AMP binding site [chemical binding]; other site 349520006575 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520006576 Condensation domain; Region: Condensation; pfam00668 349520006577 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520006578 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 349520006579 Condensation domain; Region: Condensation; pfam00668 349520006580 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520006581 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520006582 acyl-activating enzyme (AAE) consensus motif; other site 349520006583 AMP binding site [chemical binding]; other site 349520006584 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520006585 peptide synthase; Provisional; Region: PRK12467 349520006586 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520006587 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520006588 acyl-activating enzyme (AAE) consensus motif; other site 349520006589 AMP binding site [chemical binding]; other site 349520006590 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520006591 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520006592 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520006593 acyl-activating enzyme (AAE) consensus motif; other site 349520006594 AMP binding site [chemical binding]; other site 349520006595 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520006596 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 349520006597 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520006598 acyl-activating enzyme (AAE) consensus motif; other site 349520006599 AMP binding site [chemical binding]; other site 349520006600 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520006601 Condensation domain; Region: Condensation; pfam00668 349520006602 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520006603 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520006604 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520006605 acyl-activating enzyme (AAE) consensus motif; other site 349520006606 AMP binding site [chemical binding]; other site 349520006607 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520006608 Condensation domain; Region: Condensation; pfam00668 349520006609 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520006610 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520006611 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520006612 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 349520006613 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 349520006614 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 349520006615 acyl-activating enzyme (AAE) consensus motif; other site 349520006616 AMP binding site [chemical binding]; other site 349520006617 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520006618 Condensation domain; Region: Condensation; pfam00668 349520006619 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520006620 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520006621 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 349520006622 acyl-activating enzyme (AAE) consensus motif; other site 349520006623 AMP binding site [chemical binding]; other site 349520006624 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520006625 Condensation domain; Region: Condensation; pfam00668 349520006626 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520006627 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 349520006628 Condensation domain; Region: Condensation; pfam00668 349520006629 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520006630 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 349520006631 acyl-activating enzyme (AAE) consensus motif; other site 349520006632 AMP binding site [chemical binding]; other site 349520006633 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520006634 Thioesterase domain; Region: Thioesterase; pfam00975 349520006635 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 349520006636 Beta-lactamase; Region: Beta-lactamase; pfam00144 349520006637 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 349520006638 generic binding surface II; other site 349520006639 generic binding surface I; other site 349520006640 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 349520006641 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 349520006642 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 349520006643 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 349520006644 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 349520006645 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 349520006646 HTH domain; Region: HTH_11; pfam08279 349520006647 3H domain; Region: 3H; pfam02829 349520006648 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 349520006649 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 349520006650 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349520006651 catalytic residue [active] 349520006652 quinolinate synthetase; Provisional; Region: PRK09375 349520006653 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 349520006654 PQQ-like domain; Region: PQQ_2; pfam13360 349520006655 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 349520006656 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 349520006657 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 349520006658 active site 349520006659 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 349520006660 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 349520006661 active site 349520006662 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520006663 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 349520006664 active site 349520006665 phosphorylation site [posttranslational modification] 349520006666 intermolecular recognition site; other site 349520006667 dimerization interface [polypeptide binding]; other site 349520006668 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 349520006669 DNA binding site [nucleotide binding] 349520006670 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520006671 HAMP domain; Region: HAMP; pfam00672 349520006672 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 349520006673 dimer interface [polypeptide binding]; other site 349520006674 phosphorylation site [posttranslational modification] 349520006675 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 349520006676 ATP binding site [chemical binding]; other site 349520006677 Mg2+ binding site [ion binding]; other site 349520006678 G-X-G motif; other site 349520006679 NlpC/P60 family; Region: NLPC_P60; pfam00877 349520006680 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 349520006681 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 349520006682 putative ADP-binding pocket [chemical binding]; other site 349520006683 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 349520006684 active site 349520006685 Zn binding site [ion binding]; other site 349520006686 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 349520006687 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 349520006688 active site 349520006689 Cupin domain; Region: Cupin_2; cl17218 349520006690 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 349520006691 potential frameshift: common BLAST hit: gi|157691935|ref|YP_001486397.1| FAD dependent dehydrogenase 349520006692 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 349520006693 Predicted membrane protein [Function unknown]; Region: COG2323 349520006694 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 349520006695 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349520006696 Walker A/P-loop; other site 349520006697 ATP binding site [chemical binding]; other site 349520006698 Q-loop/lid; other site 349520006699 ABC transporter signature motif; other site 349520006700 Walker B; other site 349520006701 D-loop; other site 349520006702 H-loop/switch region; other site 349520006703 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 349520006704 polyphosphate kinase; Provisional; Region: PRK05443 349520006705 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 349520006706 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 349520006707 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 349520006708 putative domain interface [polypeptide binding]; other site 349520006709 putative active site [active] 349520006710 catalytic site [active] 349520006711 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 349520006712 putative domain interface [polypeptide binding]; other site 349520006713 putative active site [active] 349520006714 catalytic site [active] 349520006715 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 349520006716 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 349520006717 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 349520006718 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349520006719 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 349520006720 Soluble P-type ATPase [General function prediction only]; Region: COG4087 349520006721 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 349520006722 Predicted permeases [General function prediction only]; Region: COG0679 349520006723 hypothetical protein; Validated; Region: PRK01415 349520006724 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 349520006725 active site residue [active] 349520006726 alpha-galactosidase; Region: PLN02808; cl17638 349520006727 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 349520006728 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 349520006729 substrate binding site [chemical binding]; other site 349520006730 ATP binding site [chemical binding]; other site 349520006731 AAA domain; Region: AAA_17; pfam13207 349520006732 prolyl-tRNA synthetase; Provisional; Region: PRK09194 349520006733 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 349520006734 dimer interface [polypeptide binding]; other site 349520006735 motif 1; other site 349520006736 active site 349520006737 motif 2; other site 349520006738 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 349520006739 putative deacylase active site [active] 349520006740 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 349520006741 active site 349520006742 motif 3; other site 349520006743 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 349520006744 anticodon binding site; other site 349520006745 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 349520006746 Phosphoesterase family; Region: Phosphoesterase; pfam04185 349520006747 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520006748 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 349520006749 active site 349520006750 phosphorylation site [posttranslational modification] 349520006751 intermolecular recognition site; other site 349520006752 dimerization interface [polypeptide binding]; other site 349520006753 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 349520006754 DNA binding site [nucleotide binding] 349520006755 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520006756 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 349520006757 dimerization interface [polypeptide binding]; other site 349520006758 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 349520006759 dimer interface [polypeptide binding]; other site 349520006760 phosphorylation site [posttranslational modification] 349520006761 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 349520006762 ATP binding site [chemical binding]; other site 349520006763 Mg2+ binding site [ion binding]; other site 349520006764 G-X-G motif; other site 349520006765 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 349520006766 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 349520006767 active site 349520006768 hypothetical protein; Provisional; Region: PRK12378 349520006769 LysM domain; Region: LysM; pfam01476 349520006770 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 349520006771 NlpC/P60 family; Region: NLPC_P60; pfam00877 349520006772 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 349520006773 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 349520006774 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 349520006775 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 349520006776 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 349520006777 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 349520006778 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 349520006779 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 349520006780 Cupin; Region: Cupin_1; smart00835 349520006781 Cupin; Region: Cupin_1; smart00835 349520006782 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 349520006783 putative deacylase active site [active] 349520006784 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; cl00364 349520006785 L11 interface [polypeptide binding]; other site 349520006786 putative EF-Tu interaction site [polypeptide binding]; other site 349520006787 putative EF-G interaction site [polypeptide binding]; other site 349520006788 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349520006789 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520006790 DNA-binding site [nucleotide binding]; DNA binding site 349520006791 FCD domain; Region: FCD; pfam07729 349520006792 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 349520006793 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349520006794 catalytic residue [active] 349520006795 allantoate amidohydrolase; Reviewed; Region: PRK12890 349520006796 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 349520006797 active site 349520006798 metal binding site [ion binding]; metal-binding site 349520006799 dimer interface [polypeptide binding]; other site 349520006800 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 349520006801 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 349520006802 nucleotide binding site [chemical binding]; other site 349520006803 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 349520006804 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 349520006805 beta-galactosidase; Region: BGL; TIGR03356 349520006806 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 349520006807 active site 349520006808 metal binding site [ion binding]; metal-binding site 349520006809 homotetramer interface [polypeptide binding]; other site 349520006810 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 349520006811 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 349520006812 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 349520006813 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 349520006814 putative active site; other site 349520006815 catalytic triad [active] 349520006816 putative dimer interface [polypeptide binding]; other site 349520006817 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 349520006818 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 349520006819 active site 349520006820 FMN binding site [chemical binding]; other site 349520006821 substrate binding site [chemical binding]; other site 349520006822 putative catalytic residue [active] 349520006823 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 349520006824 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349520006825 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349520006826 Phosphotransferase enzyme family; Region: APH; pfam01636 349520006827 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 349520006828 active site 349520006829 ATP binding site [chemical binding]; other site 349520006830 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 349520006831 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 349520006832 intersubunit interface [polypeptide binding]; other site 349520006833 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 349520006834 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 349520006835 ABC-ATPase subunit interface; other site 349520006836 dimer interface [polypeptide binding]; other site 349520006837 putative PBP binding regions; other site 349520006838 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 349520006839 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 349520006840 ABC-ATPase subunit interface; other site 349520006841 dimer interface [polypeptide binding]; other site 349520006842 putative PBP binding regions; other site 349520006843 hypothetical protein; Provisional; Region: PRK09739 349520006844 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 349520006845 Predicted transcriptional regulators [Transcription]; Region: COG1733 349520006846 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 349520006847 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 349520006848 dimer interface [polypeptide binding]; other site 349520006849 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 349520006850 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 349520006851 RNA binding surface [nucleotide binding]; other site 349520006852 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 349520006853 probable active site [active] 349520006854 Spore germination protein; Region: Spore_permease; cl17796 349520006855 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 349520006856 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 349520006857 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 349520006858 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349520006859 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349520006860 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 349520006861 glyoxylate reductase; Reviewed; Region: PRK13243 349520006862 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 349520006863 ligand binding site [chemical binding]; other site 349520006864 NAD binding site [chemical binding]; other site 349520006865 dimerization interface [polypeptide binding]; other site 349520006866 catalytic site [active] 349520006867 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 349520006868 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 349520006869 TAP-like protein; Region: Abhydrolase_4; pfam08386 349520006870 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 349520006871 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520006872 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 349520006873 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 349520006874 DNA binding residues [nucleotide binding] 349520006875 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 349520006876 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520006877 MarR family; Region: MarR_2; pfam12802 349520006878 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 349520006879 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 349520006880 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 349520006881 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 349520006882 Helix-turn-helix domain; Region: HTH_38; pfam13936 349520006883 Homeodomain-like domain; Region: HTH_32; pfam13565 349520006884 Integrase core domain; Region: rve; pfam00665 349520006885 Glycosyl hydrolase family 43; Region: GH43_AXH_1; cd09003 349520006886 substrate binding site [chemical binding]; other site 349520006887 active site 349520006888 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 349520006889 metal binding site [ion binding]; metal-binding site 349520006890 ligand binding site [chemical binding]; other site 349520006891 Carbohydrate Binding Module families 36 (CBM36) and 6 (CBM6); appended mainly to glycoside hydrolase family 11 (GH11) domains; xylan binding; Region: CBM6_36_xylanase-like; cd04078 349520006892 Ca binding site [ion binding]; other site 349520006893 Ca binding site (active) [ion binding]; other site 349520006894 ligand binding site [chemical binding]; other site 349520006895 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 349520006896 active site 349520006897 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 349520006898 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 349520006899 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520006900 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 349520006901 Platelet-activating factor acetylhydrolase, isoform II; Region: PAF-AH_p_II; pfam03403 349520006902 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 349520006903 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 349520006904 active site 349520006905 catalytic residues [active] 349520006906 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 349520006907 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 349520006908 oligomer interface [polypeptide binding]; other site 349520006909 active site residues [active] 349520006910 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 349520006911 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349520006912 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 349520006913 DNA binding residues [nucleotide binding] 349520006914 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 349520006915 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 349520006916 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 349520006917 active site 349520006918 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520006919 Mor transcription activator family; Region: Mor; cl02360 349520006920 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 349520006921 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 349520006922 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 349520006923 catalytic residues [active] 349520006924 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 349520006925 Cache domain; Region: Cache_1; pfam02743 349520006926 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 349520006927 dimerization interface [polypeptide binding]; other site 349520006928 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349520006929 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520006930 dimer interface [polypeptide binding]; other site 349520006931 putative CheW interface [polypeptide binding]; other site 349520006932 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 349520006933 dimer interface [polypeptide binding]; other site 349520006934 phosphorylation site [posttranslational modification] 349520006935 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 349520006936 ATP binding site [chemical binding]; other site 349520006937 Mg2+ binding site [ion binding]; other site 349520006938 G-X-G motif; other site 349520006939 Response regulator receiver domain; Region: Response_reg; pfam00072 349520006940 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 349520006941 active site 349520006942 phosphorylation site [posttranslational modification] 349520006943 intermolecular recognition site; other site 349520006944 dimerization interface [polypeptide binding]; other site 349520006945 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 349520006946 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 349520006947 active site 349520006948 phosphorylation site [posttranslational modification] 349520006949 intermolecular recognition site; other site 349520006950 dimerization interface [polypeptide binding]; other site 349520006951 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520006952 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 349520006953 active site 349520006954 phosphorylation site [posttranslational modification] 349520006955 intermolecular recognition site; other site 349520006956 dimerization interface [polypeptide binding]; other site 349520006957 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 349520006958 DNA binding site [nucleotide binding] 349520006959 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 349520006960 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 349520006961 inhibitor-cofactor binding pocket; inhibition site 349520006962 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520006963 catalytic residue [active] 349520006964 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 349520006965 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 349520006966 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349520006967 metal binding site [ion binding]; metal-binding site 349520006968 active site 349520006969 I-site; other site 349520006970 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 349520006971 N-terminal domain of cellobiose phosphorylase (CBP) and similar proteins; Region: GH94N_CBP_like; cd11754 349520006972 catalytic domain interface [polypeptide binding]; other site 349520006973 homodimer interface [polypeptide binding]; other site 349520006974 putative active site [active] 349520006975 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 349520006976 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 349520006977 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 349520006978 Glycosyl hydrolase family 48; Region: Glyco_hydro_48; pfam02011 349520006979 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 349520006980 Interdomain contacts; other site 349520006981 Cytokine receptor motif; other site 349520006982 Cellulose binding domain; Region: CBM_3; pfam00942 349520006983 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 349520006984 Ferritin-like domain; Region: Ferritin; pfam00210 349520006985 ferroxidase diiron center [ion binding]; other site 349520006986 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 349520006987 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520006988 Coenzyme A binding pocket [chemical binding]; other site 349520006989 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 349520006990 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 349520006991 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 349520006992 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 349520006993 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 349520006994 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 349520006995 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 349520006996 Medium-chain acyl-CoA synthetase (MACS or ACSM); Region: MACS_like; cd05972 349520006997 active site 349520006998 acyl-activating enzyme (AAE) consensus motif; other site 349520006999 putative CoA binding site [chemical binding]; other site 349520007000 AMP binding site [chemical binding]; other site 349520007001 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 349520007002 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 349520007003 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520007004 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520007005 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 349520007006 Domain of unknown function (DUF4309); Region: DUF4309; pfam14172 349520007007 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520007008 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520007009 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 349520007010 CPxP motif; other site 349520007011 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 349520007012 active site residue [active] 349520007013 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 349520007014 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 349520007015 putative homodimer interface [polypeptide binding]; other site 349520007016 putative homotetramer interface [polypeptide binding]; other site 349520007017 putative metal binding site [ion binding]; other site 349520007018 putative homodimer-homodimer interface [polypeptide binding]; other site 349520007019 putative allosteric switch controlling residues; other site 349520007020 Predicted membrane protein [Function unknown]; Region: COG2323 349520007021 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 349520007022 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 349520007023 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349520007024 catalytic residue [active] 349520007025 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 349520007026 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 349520007027 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 349520007028 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349520007029 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349520007030 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349520007031 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 349520007032 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 349520007033 motif II; other site 349520007034 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520007035 Coenzyme A binding pocket [chemical binding]; other site 349520007036 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 349520007037 Melibiase; Region: Melibiase; pfam02065 349520007038 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520007039 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520007040 DNA binding site [nucleotide binding] 349520007041 domain linker motif; other site 349520007042 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 349520007043 putative dimerization interface [polypeptide binding]; other site 349520007044 putative ligand binding site [chemical binding]; other site 349520007045 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520007046 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 349520007047 dimerization interface [polypeptide binding]; other site 349520007048 Histidine kinase; Region: His_kinase; pfam06580 349520007049 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 349520007050 ATP binding site [chemical binding]; other site 349520007051 Mg2+ binding site [ion binding]; other site 349520007052 G-X-G motif; other site 349520007053 Response regulator receiver domain; Region: Response_reg; pfam00072 349520007054 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 349520007055 active site 349520007056 phosphorylation site [posttranslational modification] 349520007057 intermolecular recognition site; other site 349520007058 dimerization interface [polypeptide binding]; other site 349520007059 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520007060 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520007061 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520007062 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520007063 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520007064 dimer interface [polypeptide binding]; other site 349520007065 conserved gate region; other site 349520007066 putative PBP binding loops; other site 349520007067 ABC-ATPase subunit interface; other site 349520007068 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520007069 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520007070 dimer interface [polypeptide binding]; other site 349520007071 conserved gate region; other site 349520007072 putative PBP binding loops; other site 349520007073 ABC-ATPase subunit interface; other site 349520007074 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520007075 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 349520007076 active site 349520007077 phosphorylation site [posttranslational modification] 349520007078 intermolecular recognition site; other site 349520007079 dimerization interface [polypeptide binding]; other site 349520007080 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 349520007081 DNA binding site [nucleotide binding] 349520007082 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520007083 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 349520007084 dimer interface [polypeptide binding]; other site 349520007085 phosphorylation site [posttranslational modification] 349520007086 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 349520007087 ATP binding site [chemical binding]; other site 349520007088 Mg2+ binding site [ion binding]; other site 349520007089 G-X-G motif; other site 349520007090 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 349520007091 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 349520007092 Walker A/P-loop; other site 349520007093 ATP binding site [chemical binding]; other site 349520007094 Q-loop/lid; other site 349520007095 ABC transporter signature motif; other site 349520007096 Walker B; other site 349520007097 D-loop; other site 349520007098 H-loop/switch region; other site 349520007099 FtsX-like permease family; Region: FtsX; pfam02687 349520007100 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 349520007101 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 349520007102 HlyD family secretion protein; Region: HlyD_2; pfam12700 349520007103 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 349520007104 HlyD family secretion protein; Region: HlyD_3; pfam13437 349520007105 putative membrane fusion protein; Region: TIGR02828 349520007106 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 349520007107 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 349520007108 Walker A/P-loop; other site 349520007109 ATP binding site [chemical binding]; other site 349520007110 Q-loop/lid; other site 349520007111 ABC transporter signature motif; other site 349520007112 Walker B; other site 349520007113 D-loop; other site 349520007114 H-loop/switch region; other site 349520007115 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 349520007116 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 349520007117 FtsX-like permease family; Region: FtsX; pfam02687 349520007118 potential frameshift: common BLAST hit: gi|150016836|ref|YP_001309090.1| polysaccharide deacetylase 349520007119 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 349520007120 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 349520007121 potential frameshift: common BLAST hit: gi|150015258|ref|YP_001307512.1| polysaccharide deacetylase 349520007122 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 349520007123 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 349520007124 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 349520007125 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349520007126 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 349520007127 DNA binding residues [nucleotide binding] 349520007128 trehalose synthase; Region: treS_nterm; TIGR02456 349520007129 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 349520007130 Ca binding site [ion binding]; other site 349520007131 active site 349520007132 catalytic site [active] 349520007133 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 349520007134 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 349520007135 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 349520007136 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 349520007137 motif II; other site 349520007138 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 349520007139 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 349520007140 NAD(P) binding site [chemical binding]; other site 349520007141 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 349520007142 4-aminobutyrate aminotransferase; Provisional; Region: PRK05769 349520007143 inhibitor-cofactor binding pocket; inhibition site 349520007144 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520007145 catalytic residue [active] 349520007146 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 349520007147 Cupin domain; Region: Cupin_2; pfam07883 349520007148 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520007149 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520007150 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520007151 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349520007152 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349520007153 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 349520007154 Carbohydrate binding domain; Region: CBM_25; smart01066 349520007155 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 349520007156 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 349520007157 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 349520007158 active site 349520007159 catalytic site [active] 349520007160 S-layer homology domain; Region: SLH; pfam00395 349520007161 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 349520007162 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 349520007163 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 349520007164 The adenylation domain of nonribosomal peptide synthetases (NRPS) similar to mycosubtilin synthase subunit A (MycA); Region: A_NRPS_MycA_like; cd05908 349520007165 acyl-activating enzyme (AAE) consensus motif; other site 349520007166 putative AMP binding site [chemical binding]; other site 349520007167 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520007168 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 349520007169 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 349520007170 active site 349520007171 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520007172 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 349520007173 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 349520007174 inhibitor-cofactor binding pocket; inhibition site 349520007175 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520007176 catalytic residue [active] 349520007177 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520007178 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 349520007179 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 349520007180 inhibitor-cofactor binding pocket; inhibition site 349520007181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520007182 catalytic residue [active] 349520007183 Condensation domain; Region: Condensation; pfam00668 349520007184 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520007185 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520007186 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 349520007187 CoA binding site [chemical binding]; other site 349520007188 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520007189 Condensation domain; Region: Condensation; pfam00668 349520007190 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520007191 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520007192 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520007193 acyl-activating enzyme (AAE) consensus motif; other site 349520007194 AMP binding site [chemical binding]; other site 349520007195 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520007196 Condensation domain; Region: Condensation; pfam00668 349520007197 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 349520007198 Condensation domain; Region: Condensation; pfam00668 349520007199 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520007200 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520007201 acyl-activating enzyme (AAE) consensus motif; other site 349520007202 AMP binding site [chemical binding]; other site 349520007203 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520007204 Condensation domain; Region: Condensation; pfam00668 349520007205 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520007206 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 349520007207 Condensation domain; Region: Condensation; pfam00668 349520007208 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520007209 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520007210 acyl-activating enzyme (AAE) consensus motif; other site 349520007211 AMP binding site [chemical binding]; other site 349520007212 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520007213 Condensation domain; Region: Condensation; pfam00668 349520007214 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520007215 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 349520007216 Condensation domain; Region: Condensation; pfam00668 349520007217 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520007218 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 349520007219 acyl-activating enzyme (AAE) consensus motif; other site 349520007220 AMP binding site [chemical binding]; other site 349520007221 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520007222 Condensation domain; Region: Condensation; pfam00668 349520007223 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520007224 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 349520007225 Condensation domain; Region: Condensation; pfam00668 349520007226 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520007227 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520007228 acyl-activating enzyme (AAE) consensus motif; other site 349520007229 AMP binding site [chemical binding]; other site 349520007230 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520007231 Condensation domain; Region: Condensation; pfam00668 349520007232 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520007233 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520007234 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520007235 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520007236 acyl-activating enzyme (AAE) consensus motif; other site 349520007237 AMP binding site [chemical binding]; other site 349520007238 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520007239 Condensation domain; Region: Condensation; pfam00668 349520007240 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520007241 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520007242 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520007243 acyl-activating enzyme (AAE) consensus motif; other site 349520007244 AMP binding site [chemical binding]; other site 349520007245 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520007246 Condensation domain; Region: Condensation; pfam00668 349520007247 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 349520007248 putative substrate translocation pore; other site 349520007249 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 349520007250 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520007251 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520007252 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 349520007253 dimerization interface [polypeptide binding]; other site 349520007254 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520007255 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520007256 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520007257 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 349520007258 Predicted transcriptional regulators [Transcription]; Region: COG1733 349520007259 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 349520007260 dimerization interface [polypeptide binding]; other site 349520007261 putative DNA binding site [nucleotide binding]; other site 349520007262 putative Zn2+ binding site [ion binding]; other site 349520007263 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 349520007264 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 349520007265 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 349520007266 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 349520007267 dimer interface [polypeptide binding]; other site 349520007268 active site 349520007269 catalytic residue [active] 349520007270 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520007271 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520007272 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 349520007273 dimerization interface [polypeptide binding]; other site 349520007274 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 349520007275 phosphate binding site [ion binding]; other site 349520007276 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520007277 MarR family; Region: MarR; pfam01047 349520007278 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349520007279 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520007280 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520007281 Walker A/P-loop; other site 349520007282 ATP binding site [chemical binding]; other site 349520007283 Q-loop/lid; other site 349520007284 ABC transporter signature motif; other site 349520007285 Walker B; other site 349520007286 D-loop; other site 349520007287 H-loop/switch region; other site 349520007288 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349520007289 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520007290 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 349520007291 Walker A/P-loop; other site 349520007292 ATP binding site [chemical binding]; other site 349520007293 Q-loop/lid; other site 349520007294 ABC transporter signature motif; other site 349520007295 Walker B; other site 349520007296 D-loop; other site 349520007297 H-loop/switch region; other site 349520007298 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349520007299 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349520007300 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349520007301 Predicted membrane protein [Function unknown]; Region: COG2364 349520007302 Transcriptional regulators [Transcription]; Region: MarR; COG1846 349520007303 MarR family; Region: MarR; pfam01047 349520007304 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 349520007305 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520007306 Coenzyme A binding pocket [chemical binding]; other site 349520007307 alpha-amylase; Reviewed; Region: malS; PRK09505 349520007308 Histidine kinase; Region: His_kinase; pfam06580 349520007309 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 349520007310 ATP binding site [chemical binding]; other site 349520007311 Mg2+ binding site [ion binding]; other site 349520007312 G-X-G motif; other site 349520007313 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 349520007314 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 349520007315 active site 349520007316 phosphorylation site [posttranslational modification] 349520007317 intermolecular recognition site; other site 349520007318 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520007319 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520007320 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520007321 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 349520007322 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520007323 dimer interface [polypeptide binding]; other site 349520007324 conserved gate region; other site 349520007325 ABC-ATPase subunit interface; other site 349520007326 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520007327 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520007328 conserved gate region; other site 349520007329 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349520007330 ABC-ATPase subunit interface; other site 349520007331 Integrase core domain; Region: rve_3; cl15866 349520007332 Spore germination protein; Region: Spore_permease; cl17796 349520007333 hypothetical protein; Provisional; Region: PRK10649 349520007334 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 349520007335 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 349520007336 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 349520007337 Major royal jelly protein; Region: MRJP; pfam03022 349520007338 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 349520007339 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 349520007340 putative NAD(P) binding site [chemical binding]; other site 349520007341 dimer interface [polypeptide binding]; other site 349520007342 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 349520007343 short chain dehydrogenase; Provisional; Region: PRK07041 349520007344 putative NAD(P) binding site [chemical binding]; other site 349520007345 homodimer interface [polypeptide binding]; other site 349520007346 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 349520007347 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 349520007348 NAD binding site [chemical binding]; other site 349520007349 catalytic Zn binding site [ion binding]; other site 349520007350 structural Zn binding site [ion binding]; other site 349520007351 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 349520007352 Spore germination protein; Region: Spore_permease; cl17796 349520007353 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 349520007354 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 349520007355 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 349520007356 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 349520007357 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 349520007358 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349520007359 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349520007360 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520007361 DNA-binding site [nucleotide binding]; DNA binding site 349520007362 FCD domain; Region: FCD; pfam07729 349520007363 mannonate dehydratase; Provisional; Region: PRK03906 349520007364 mannonate dehydratase; Region: uxuA; TIGR00695 349520007365 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 349520007366 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 349520007367 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 349520007368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520007369 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520007370 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520007371 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 349520007372 active site 349520007373 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349520007374 catalytic tetrad [active] 349520007375 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349520007376 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349520007377 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 349520007378 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349520007379 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349520007380 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 349520007381 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520007382 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520007383 DNA binding site [nucleotide binding] 349520007384 domain linker motif; other site 349520007385 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 349520007386 ligand binding site [chemical binding]; other site 349520007387 dimerization interface [polypeptide binding]; other site 349520007388 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 349520007389 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349520007390 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349520007391 putative oxidoreductase; Provisional; Region: PRK10206 349520007392 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349520007393 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 349520007394 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 349520007395 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 349520007396 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 349520007397 putative active site [active] 349520007398 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 349520007399 hydroxyglutarate oxidase; Provisional; Region: PRK11728 349520007400 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 349520007401 Interdomain contacts; other site 349520007402 Cytokine receptor motif; other site 349520007403 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520007404 integral membrane protein; Region: integ_memb_HG; TIGR03954 349520007405 YolD-like protein; Region: YolD; pfam08863 349520007406 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520007407 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520007408 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 349520007409 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520007410 putative substrate translocation pore; other site 349520007411 potential frameshift: common BLAST hit: gi|52080891|ref|YP_079682.1| oligopeptide ABC transporter (oligopeptide-binding protein) 349520007412 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_3; cd08490 349520007413 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 349520007414 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 349520007415 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349520007416 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520007417 dimer interface [polypeptide binding]; other site 349520007418 conserved gate region; other site 349520007419 putative PBP binding loops; other site 349520007420 ABC-ATPase subunit interface; other site 349520007421 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 349520007422 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520007423 dimer interface [polypeptide binding]; other site 349520007424 conserved gate region; other site 349520007425 putative PBP binding loops; other site 349520007426 ABC-ATPase subunit interface; other site 349520007427 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 349520007428 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349520007429 Walker A/P-loop; other site 349520007430 ATP binding site [chemical binding]; other site 349520007431 Q-loop/lid; other site 349520007432 ABC transporter signature motif; other site 349520007433 Walker B; other site 349520007434 D-loop; other site 349520007435 H-loop/switch region; other site 349520007436 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349520007437 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349520007438 Walker A/P-loop; other site 349520007439 ATP binding site [chemical binding]; other site 349520007440 Q-loop/lid; other site 349520007441 ABC transporter signature motif; other site 349520007442 Walker B; other site 349520007443 D-loop; other site 349520007444 H-loop/switch region; other site 349520007445 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 349520007446 putative efflux protein, MATE family; Region: matE; TIGR00797 349520007447 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 349520007448 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 349520007449 tetramer interface [polypeptide binding]; other site 349520007450 heme binding pocket [chemical binding]; other site 349520007451 NADPH binding site [chemical binding]; other site 349520007452 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 349520007453 ligand-binding site [chemical binding]; other site 349520007454 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4295 349520007455 Uncharacterized protein conserved in bacteria (DUF2263); Region: DUF2263; pfam10021 349520007456 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 349520007457 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 349520007458 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 349520007459 nudix motif; other site 349520007460 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 349520007461 Protein of unknown function; Region: DUF3658; pfam12395 349520007462 glutaminase A; Region: Gln_ase; TIGR03814 349520007463 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 349520007464 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 349520007465 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 349520007466 putative metal binding site [ion binding]; other site 349520007467 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 349520007468 active site 349520007469 Predicted membrane protein [Function unknown]; Region: COG2259 349520007470 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 349520007471 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 349520007472 non-specific DNA binding site [nucleotide binding]; other site 349520007473 salt bridge; other site 349520007474 sequence-specific DNA binding site [nucleotide binding]; other site 349520007475 Cupin domain; Region: Cupin_2; pfam07883 349520007476 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520007477 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 349520007478 potassium/proton antiporter; Reviewed; Region: PRK05326 349520007479 TrkA-C domain; Region: TrkA_C; pfam02080 349520007480 fumarate hydratase; Reviewed; Region: fumC; PRK00485 349520007481 Class II fumarases; Region: Fumarase_classII; cd01362 349520007482 active site 349520007483 tetramer interface [polypeptide binding]; other site 349520007484 2-isopropylmalate synthase; Validated; Region: PRK00915 349520007485 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 349520007486 active site 349520007487 catalytic residues [active] 349520007488 metal binding site [ion binding]; metal-binding site 349520007489 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 349520007490 Transcriptional regulators [Transcription]; Region: FadR; COG2186 349520007491 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520007492 DNA-binding site [nucleotide binding]; DNA binding site 349520007493 FCD domain; Region: FCD; pfam07729 349520007494 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 349520007495 active site 349520007496 catalytic residues [active] 349520007497 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 349520007498 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 349520007499 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 349520007500 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 349520007501 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 349520007502 dimer interface [polypeptide binding]; other site 349520007503 active site 349520007504 metal binding site [ion binding]; metal-binding site 349520007505 biotin synthase; Validated; Region: PRK06256 349520007506 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 349520007507 FeS/SAM binding site; other site 349520007508 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 349520007509 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 349520007510 Domain of unknown function DUF21; Region: DUF21; pfam01595 349520007511 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 349520007512 Transporter associated domain; Region: CorC_HlyC; smart01091 349520007513 Spore coat protein (Spore_GerQ); Region: Spore_GerQ; pfam09671 349520007514 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 349520007515 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 349520007516 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520007517 NAD(P) binding site [chemical binding]; other site 349520007518 active site 349520007519 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 349520007520 Ycf48-like protein; Provisional; Region: PRK13684 349520007521 Ycf48-like protein; Provisional; Region: PRK13684 349520007522 amino acid transporter; Region: 2A0306; TIGR00909 349520007523 Spore germination protein; Region: Spore_permease; cl17796 349520007524 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 349520007525 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 349520007526 NAD binding site [chemical binding]; other site 349520007527 dimer interface [polypeptide binding]; other site 349520007528 substrate binding site [chemical binding]; other site 349520007529 tetramer (dimer of dimers) interface [polypeptide binding]; other site 349520007530 Protein of unknown function (DUF3900); Region: DUF3900; pfam13039 349520007531 Domain of unknown function (DUF3898); Region: DUF3898; pfam13037 349520007532 potential frameshift: common BLAST hit: gi|261407517|ref|YP_003243758.1| major facilitator superfamily MFS_1 349520007533 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 349520007534 putative substrate translocation pore; other site 349520007535 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349520007536 Transposase; Region: HTH_Tnp_1; cl17663 349520007537 putative transposase OrfB; Reviewed; Region: PHA02517 349520007538 HTH-like domain; Region: HTH_21; pfam13276 349520007539 Integrase core domain; Region: rve; pfam00665 349520007540 Integrase core domain; Region: rve_2; pfam13333 349520007541 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 349520007542 MutS domain III; Region: MutS_III; pfam05192 349520007543 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520007544 Walker A/P-loop; other site 349520007545 ATP binding site [chemical binding]; other site 349520007546 Q-loop/lid; other site 349520007547 ABC transporter signature motif; other site 349520007548 Walker B; other site 349520007549 D-loop; other site 349520007550 H-loop/switch region; other site 349520007551 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 349520007552 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 349520007553 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 349520007554 active site 349520007555 DNA binding site [nucleotide binding] 349520007556 Int/Topo IB signature motif; other site 349520007557 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 349520007558 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 349520007559 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 349520007560 ABC-ATPase subunit interface; other site 349520007561 dimer interface [polypeptide binding]; other site 349520007562 putative PBP binding regions; other site 349520007563 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 349520007564 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 349520007565 ABC-ATPase subunit interface; other site 349520007566 dimer interface [polypeptide binding]; other site 349520007567 putative PBP binding regions; other site 349520007568 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 349520007569 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 349520007570 intersubunit interface [polypeptide binding]; other site 349520007571 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349520007572 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520007573 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 349520007574 Walker A/P-loop; other site 349520007575 ATP binding site [chemical binding]; other site 349520007576 Q-loop/lid; other site 349520007577 ABC transporter signature motif; other site 349520007578 Walker B; other site 349520007579 D-loop; other site 349520007580 H-loop/switch region; other site 349520007581 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 349520007582 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 349520007583 intersubunit interface [polypeptide binding]; other site 349520007584 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 349520007585 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 349520007586 ligand binding site [chemical binding]; other site 349520007587 dimerization interface [polypeptide binding]; other site 349520007588 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349520007589 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 349520007590 TM-ABC transporter signature motif; other site 349520007591 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 349520007592 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 349520007593 Walker A/P-loop; other site 349520007594 ATP binding site [chemical binding]; other site 349520007595 Q-loop/lid; other site 349520007596 ABC transporter signature motif; other site 349520007597 Walker B; other site 349520007598 D-loop; other site 349520007599 H-loop/switch region; other site 349520007600 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 349520007601 D-ribose pyranase; Provisional; Region: PRK11797 349520007602 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 349520007603 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 349520007604 substrate binding site [chemical binding]; other site 349520007605 dimer interface [polypeptide binding]; other site 349520007606 ATP binding site [chemical binding]; other site 349520007607 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520007608 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520007609 DNA binding site [nucleotide binding] 349520007610 domain linker motif; other site 349520007611 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 349520007612 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 349520007613 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 349520007614 catalytic residues [active] 349520007615 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 349520007616 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 349520007617 putative NAD(P) binding site [chemical binding]; other site 349520007618 putative active site [active] 349520007619 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520007620 Predicted permeases [General function prediction only]; Region: COG0679 349520007621 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 349520007622 Cellulose binding domain; Region: CBM_3; pfam00942 349520007623 potential frameshift: common BLAST hit: gi|56964568|ref|YP_176299.1| N-acyl-L-amino acid amidohydrolase 349520007624 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 349520007625 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 349520007626 dimer interface [polypeptide binding]; other site 349520007627 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 349520007628 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 349520007629 metal binding site [ion binding]; metal-binding site 349520007630 Predicted acetyltransferase [General function prediction only]; Region: COG5628 349520007631 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 349520007632 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 349520007633 active site 349520007634 DNA binding site [nucleotide binding] 349520007635 Int/Topo IB signature motif; other site 349520007636 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 349520007637 Walker A motif; other site 349520007638 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 349520007639 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 349520007640 dimer interface [polypeptide binding]; other site 349520007641 putative functional site; other site 349520007642 putative MPT binding site; other site 349520007643 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 349520007644 putative hydrophobic ligand binding site [chemical binding]; other site 349520007645 Domain of unknown function (DUF4247); Region: DUF4247; pfam14042 349520007646 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 349520007647 Predicted membrane protein [Function unknown]; Region: COG3766 349520007648 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 349520007649 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 349520007650 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 349520007651 active site 349520007652 FMN binding site [chemical binding]; other site 349520007653 substrate binding site [chemical binding]; other site 349520007654 homotetramer interface [polypeptide binding]; other site 349520007655 catalytic residue [active] 349520007656 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 349520007657 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 349520007658 NodB motif; other site 349520007659 active site 349520007660 catalytic site [active] 349520007661 metal binding site [ion binding]; metal-binding site 349520007662 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349520007663 3D domain; Region: 3D; cl01439 349520007664 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349520007665 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 349520007666 Walker A/P-loop; other site 349520007667 ATP binding site [chemical binding]; other site 349520007668 Q-loop/lid; other site 349520007669 ABC transporter signature motif; other site 349520007670 Walker B; other site 349520007671 D-loop; other site 349520007672 H-loop/switch region; other site 349520007673 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 349520007674 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349520007675 substrate binding pocket [chemical binding]; other site 349520007676 membrane-bound complex binding site; other site 349520007677 hinge residues; other site 349520007678 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349520007679 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520007680 dimer interface [polypeptide binding]; other site 349520007681 conserved gate region; other site 349520007682 putative PBP binding loops; other site 349520007683 ABC-ATPase subunit interface; other site 349520007684 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 349520007685 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 349520007686 metal binding site [ion binding]; metal-binding site 349520007687 Uncharacterized conserved protein [Function unknown]; Region: COG4278 349520007688 glycogen synthase; Provisional; Region: glgA; PRK00654 349520007689 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 349520007690 ADP-binding pocket [chemical binding]; other site 349520007691 homodimer interface [polypeptide binding]; other site 349520007692 glycogen branching enzyme; Provisional; Region: PRK12313 349520007693 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 349520007694 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 349520007695 active site 349520007696 catalytic site [active] 349520007697 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 349520007698 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 349520007699 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 349520007700 ligand binding site; other site 349520007701 oligomer interface; other site 349520007702 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 349520007703 N-terminal domain interface [polypeptide binding]; other site 349520007704 sulfate 1 binding site; other site 349520007705 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520007706 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 349520007707 dimerization interface [polypeptide binding]; other site 349520007708 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 349520007709 dimer interface [polypeptide binding]; other site 349520007710 phosphorylation site [posttranslational modification] 349520007711 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 349520007712 ATP binding site [chemical binding]; other site 349520007713 Mg2+ binding site [ion binding]; other site 349520007714 G-X-G motif; other site 349520007715 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520007716 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 349520007717 active site 349520007718 phosphorylation site [posttranslational modification] 349520007719 intermolecular recognition site; other site 349520007720 dimerization interface [polypeptide binding]; other site 349520007721 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 349520007722 DNA binding site [nucleotide binding] 349520007723 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 349520007724 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520007725 Walker A/P-loop; other site 349520007726 ATP binding site [chemical binding]; other site 349520007727 Q-loop/lid; other site 349520007728 ABC transporter signature motif; other site 349520007729 Walker B; other site 349520007730 D-loop; other site 349520007731 H-loop/switch region; other site 349520007732 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 349520007733 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520007734 putative substrate translocation pore; other site 349520007735 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 349520007736 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 349520007737 motif II; other site 349520007738 DNA topoisomerase III; Provisional; Region: PRK07726 349520007739 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 349520007740 active site 349520007741 putative interdomain interaction site [polypeptide binding]; other site 349520007742 putative metal-binding site [ion binding]; other site 349520007743 putative nucleotide binding site [chemical binding]; other site 349520007744 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 349520007745 domain I; other site 349520007746 DNA binding groove [nucleotide binding] 349520007747 phosphate binding site [ion binding]; other site 349520007748 domain II; other site 349520007749 domain III; other site 349520007750 nucleotide binding site [chemical binding]; other site 349520007751 catalytic site [active] 349520007752 domain IV; other site 349520007753 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 349520007754 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 349520007755 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349520007756 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 349520007757 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 349520007758 folate binding site [chemical binding]; other site 349520007759 NADP+ binding site [chemical binding]; other site 349520007760 thymidylate synthase; Reviewed; Region: thyA; PRK01827 349520007761 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 349520007762 dimerization interface [polypeptide binding]; other site 349520007763 active site 349520007764 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 349520007765 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349520007766 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349520007767 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349520007768 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 349520007769 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 349520007770 E3 interaction surface; other site 349520007771 lipoyl attachment site [posttranslational modification]; other site 349520007772 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 349520007773 E3 interaction surface; other site 349520007774 lipoyl attachment site [posttranslational modification]; other site 349520007775 e3 binding domain; Region: E3_binding; pfam02817 349520007776 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 349520007777 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 349520007778 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 349520007779 alpha subunit interface [polypeptide binding]; other site 349520007780 TPP binding site [chemical binding]; other site 349520007781 heterodimer interface [polypeptide binding]; other site 349520007782 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349520007783 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 349520007784 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 349520007785 TPP-binding site [chemical binding]; other site 349520007786 heterodimer interface [polypeptide binding]; other site 349520007787 tetramer interface [polypeptide binding]; other site 349520007788 phosphorylation loop region [posttranslational modification] 349520007789 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 349520007790 Putative esterase; Region: Esterase; pfam00756 349520007791 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 349520007792 Low molecular weight phosphatase family; Region: LMWPc; cd00115 349520007793 active site 349520007794 Thiamine pyrophosphokinase; Region: TPK; cd07995 349520007795 dimerization interface [polypeptide binding]; other site 349520007796 thiamine binding site [chemical binding]; other site 349520007797 NlpC/P60 family; Region: NLPC_P60; pfam00877 349520007798 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520007799 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 349520007800 active site 349520007801 phosphorylation site [posttranslational modification] 349520007802 intermolecular recognition site; other site 349520007803 dimerization interface [polypeptide binding]; other site 349520007804 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 349520007805 DNA binding site [nucleotide binding] 349520007806 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 349520007807 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 349520007808 ATP binding site [chemical binding]; other site 349520007809 substrate interface [chemical binding]; other site 349520007810 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 349520007811 ThiS interaction site; other site 349520007812 putative active site [active] 349520007813 tetramer interface [polypeptide binding]; other site 349520007814 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 349520007815 thiS-thiF/thiG interaction site; other site 349520007816 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 349520007817 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 349520007818 active site 349520007819 thiamine phosphate binding site [chemical binding]; other site 349520007820 pyrophosphate binding site [ion binding]; other site 349520007821 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 349520007822 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520007823 Walker A/P-loop; other site 349520007824 ATP binding site [chemical binding]; other site 349520007825 Q-loop/lid; other site 349520007826 ABC transporter signature motif; other site 349520007827 Walker B; other site 349520007828 D-loop; other site 349520007829 H-loop/switch region; other site 349520007830 ABC transporter; Region: ABC_tran_2; pfam12848 349520007831 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349520007832 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 349520007833 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 349520007834 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 349520007835 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 349520007836 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 349520007837 Catalytic domain of Protein Kinases; Region: PKc; cd00180 349520007838 active site 349520007839 ATP binding site [chemical binding]; other site 349520007840 substrate binding site [chemical binding]; other site 349520007841 activation loop (A-loop); other site 349520007842 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 349520007843 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 349520007844 S-adenosylmethionine binding site [chemical binding]; other site 349520007845 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 349520007846 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 349520007847 Walker A/P-loop; other site 349520007848 ATP binding site [chemical binding]; other site 349520007849 Q-loop/lid; other site 349520007850 ABC transporter signature motif; other site 349520007851 Walker B; other site 349520007852 D-loop; other site 349520007853 H-loop/switch region; other site 349520007854 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 349520007855 catalytic residues [active] 349520007856 AP endonuclease family 2; Region: AP2Ec; smart00518 349520007857 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 349520007858 AP (apurinic/apyrimidinic) site pocket; other site 349520007859 DNA interaction; other site 349520007860 Metal-binding active site; metal-binding site 349520007861 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 349520007862 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 349520007863 DNA binding site [nucleotide binding] 349520007864 catalytic residue [active] 349520007865 H2TH interface [polypeptide binding]; other site 349520007866 putative catalytic residues [active] 349520007867 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 349520007868 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 349520007869 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 349520007870 active site 349520007871 motif I; other site 349520007872 motif II; other site 349520007873 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 349520007874 ribonuclease Z; Region: RNase_Z; TIGR02651 349520007875 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 349520007876 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 349520007877 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 349520007878 substrate binding pocket [chemical binding]; other site 349520007879 dimer interface [polypeptide binding]; other site 349520007880 inhibitor binding site; inhibition site 349520007881 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 349520007882 B12 binding site [chemical binding]; other site 349520007883 cobalt ligand [ion binding]; other site 349520007884 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 349520007885 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 349520007886 Cupin domain; Region: Cupin_2; pfam07883 349520007887 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 349520007888 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 349520007889 motif II; other site 349520007890 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 349520007891 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349520007892 LexA repressor; Validated; Region: PRK00215 349520007893 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 349520007894 putative DNA binding site [nucleotide binding]; other site 349520007895 putative Zn2+ binding site [ion binding]; other site 349520007896 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 349520007897 Catalytic site [active] 349520007898 PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain or LH2 (Lipoxygenase homology 2) domain. It consists of an eight stranded beta-barrel. The domain can be found in various domain architectures, in case of lipoxygenases, alpha toxin, lipases and...; Region: PLAT; cl00011 349520007899 HTH-like domain; Region: HTH_21; pfam13276 349520007900 Integrase core domain; Region: rve; pfam00665 349520007901 Integrase core domain; Region: rve_2; pfam13333 349520007902 Homeodomain-like domain; Region: HTH_23; pfam13384 349520007903 Helix-turn-helix domain; Region: HTH_28; pfam13518 349520007904 Protein of unknown function (DUF972); Region: DUF972; pfam06156 349520007905 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 349520007906 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 349520007907 putative transposase OrfB; Reviewed; Region: PHA02517 349520007908 HTH-like domain; Region: HTH_21; pfam13276 349520007909 Integrase core domain; Region: rve; pfam00665 349520007910 Integrase core domain; Region: rve_2; pfam13333 349520007911 RES domain; Region: RES; pfam08808 349520007912 putative transposase OrfB; Reviewed; Region: PHA02517 349520007913 HTH-like domain; Region: HTH_21; pfam13276 349520007914 Integrase core domain; Region: rve; pfam00665 349520007915 Integrase core domain; Region: rve_3; pfam13683 349520007916 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 349520007917 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 349520007918 Predicted transcriptional regulator [Transcription]; Region: COG1959 349520007919 Transcriptional regulator; Region: Rrf2; pfam02082 349520007920 Transposase; Region: DEDD_Tnp_IS110; pfam01548 349520007921 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 349520007922 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 349520007923 glutamine synthetase, type I; Region: GlnA; TIGR00653 349520007924 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 349520007925 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 349520007926 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 349520007927 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 349520007928 DNA binding residues [nucleotide binding] 349520007929 putative dimer interface [polypeptide binding]; other site 349520007930 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 349520007931 Aluminium resistance protein; Region: Alum_res; pfam06838 349520007932 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 349520007933 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 349520007934 HflX GTPase family; Region: HflX; cd01878 349520007935 G1 box; other site 349520007936 GTP/Mg2+ binding site [chemical binding]; other site 349520007937 Switch I region; other site 349520007938 G2 box; other site 349520007939 G3 box; other site 349520007940 Switch II region; other site 349520007941 G4 box; other site 349520007942 G5 box; other site 349520007943 stage V sporulation protein K; Region: spore_V_K; TIGR02881 349520007944 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 349520007945 Walker A motif; other site 349520007946 ATP binding site [chemical binding]; other site 349520007947 Walker B motif; other site 349520007948 arginine finger; other site 349520007949 Uncharacterized conserved protein [Function unknown]; Region: COG1434 349520007950 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 349520007951 putative active site [active] 349520007952 Protein of unknown function (DUF402); Region: DUF402; cl00979 349520007953 Transglycosylase; Region: Transgly; pfam00912 349520007954 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 349520007955 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 349520007956 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 349520007957 Interdomain contacts; other site 349520007958 Cytokine receptor motif; other site 349520007959 bacterial Hfq-like; Region: Hfq; cd01716 349520007960 hexamer interface [polypeptide binding]; other site 349520007961 Sm1 motif; other site 349520007962 RNA binding site [nucleotide binding]; other site 349520007963 Sm2 motif; other site 349520007964 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 349520007965 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 349520007966 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 349520007967 S-adenosylmethionine binding site [chemical binding]; other site 349520007968 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 349520007969 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 349520007970 ATP binding site [chemical binding]; other site 349520007971 Mg2+ binding site [ion binding]; other site 349520007972 G-X-G motif; other site 349520007973 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 349520007974 ATP binding site [chemical binding]; other site 349520007975 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 349520007976 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 349520007977 MutS domain I; Region: MutS_I; pfam01624 349520007978 MutS domain II; Region: MutS_II; pfam05188 349520007979 MutS domain III; Region: MutS_III; pfam05192 349520007980 MutS domain V; Region: MutS_V; pfam00488 349520007981 Walker A/P-loop; other site 349520007982 ATP binding site [chemical binding]; other site 349520007983 Q-loop/lid; other site 349520007984 ABC transporter signature motif; other site 349520007985 Walker B; other site 349520007986 D-loop; other site 349520007987 H-loop/switch region; other site 349520007988 Phage phiEco32-like COOH.NH2 ligase-type 2; Region: COOH-NH2_lig; pfam14395 349520007989 Outer spore coat protein E (CotE); Region: CotE; pfam10628 349520007990 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520007991 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520007992 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 349520007993 dimerization interface [polypeptide binding]; other site 349520007994 putative transporter; Provisional; Region: PRK11021 349520007995 Predicted membrane protein [Function unknown]; Region: COG4129 349520007996 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 349520007997 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 349520007998 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 349520007999 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520008000 dimer interface [polypeptide binding]; other site 349520008001 conserved gate region; other site 349520008002 putative PBP binding loops; other site 349520008003 ABC-ATPase subunit interface; other site 349520008004 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 349520008005 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 349520008006 Walker A/P-loop; other site 349520008007 ATP binding site [chemical binding]; other site 349520008008 Q-loop/lid; other site 349520008009 ABC transporter signature motif; other site 349520008010 Walker B; other site 349520008011 D-loop; other site 349520008012 H-loop/switch region; other site 349520008013 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 349520008014 NMT1-like family; Region: NMT1_2; pfam13379 349520008015 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 349520008016 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 349520008017 active site 349520008018 Zn binding site [ion binding]; other site 349520008019 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 349520008020 active site clefts [active] 349520008021 zinc binding site [ion binding]; other site 349520008022 dimer interface [polypeptide binding]; other site 349520008023 Predicted transcriptional regulators [Transcription]; Region: COG1695 349520008024 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 349520008025 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 349520008026 Protein of unknown function (DUF2653); Region: DUF2653; pfam10850 349520008027 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 349520008028 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 349520008029 FeS/SAM binding site; other site 349520008030 coproporphyrinogen III oxidase; Validated; Region: PRK08208 349520008031 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 349520008032 FeS/SAM binding site; other site 349520008033 HemN C-terminal domain; Region: HemN_C; pfam06969 349520008034 Sulfatase; Region: Sulfatase; cl17466 349520008035 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 349520008036 Substrate binding site [chemical binding]; other site 349520008037 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 349520008038 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 349520008039 HlyD family secretion protein; Region: HlyD_3; pfam13437 349520008040 putative membrane fusion protein; Region: TIGR02828 349520008041 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 349520008042 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 349520008043 putative substrate translocation pore; other site 349520008044 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 349520008045 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 349520008046 E3 interaction surface; other site 349520008047 lipoyl attachment site [posttranslational modification]; other site 349520008048 HlyD family secretion protein; Region: HlyD_3; pfam13437 349520008049 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 349520008050 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 349520008051 Methyltransferase domain; Region: Methyltransf_26; pfam13659 349520008052 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 349520008053 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 349520008054 active site 349520008055 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 349520008056 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 349520008057 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 349520008058 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520008059 MarR family; Region: MarR; pfam01047 349520008060 Transcriptional regulators [Transcription]; Region: MarR; COG1846 349520008061 MarR family; Region: MarR; pfam01047 349520008062 DNA gyrase subunit A; Validated; Region: PRK05560 349520008063 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 349520008064 CAP-like domain; other site 349520008065 active site 349520008066 primary dimer interface [polypeptide binding]; other site 349520008067 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349520008068 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349520008069 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349520008070 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349520008071 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 349520008072 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 349520008073 ATP binding site [chemical binding]; other site 349520008074 Mg2+ binding site [ion binding]; other site 349520008075 G-X-G motif; other site 349520008076 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 349520008077 anchoring element; other site 349520008078 dimer interface [polypeptide binding]; other site 349520008079 ATP binding site [chemical binding]; other site 349520008080 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 349520008081 active site 349520008082 metal binding site [ion binding]; metal-binding site 349520008083 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 349520008084 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 349520008085 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 349520008086 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 349520008087 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 349520008088 Walker A/P-loop; other site 349520008089 ATP binding site [chemical binding]; other site 349520008090 Q-loop/lid; other site 349520008091 ABC transporter signature motif; other site 349520008092 Walker B; other site 349520008093 D-loop; other site 349520008094 H-loop/switch region; other site 349520008095 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 349520008096 active site 349520008097 catalytic triad [active] 349520008098 oxyanion hole [active] 349520008099 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 349520008100 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 349520008101 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 349520008102 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520008103 Coenzyme A binding pocket [chemical binding]; other site 349520008104 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 349520008105 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520008106 ATP-grasp domain; Region: ATP-grasp; pfam02222 349520008107 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349520008108 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520008109 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 349520008110 Walker A/P-loop; other site 349520008111 ATP binding site [chemical binding]; other site 349520008112 Q-loop/lid; other site 349520008113 ABC transporter signature motif; other site 349520008114 Walker B; other site 349520008115 D-loop; other site 349520008116 H-loop/switch region; other site 349520008117 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349520008118 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520008119 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520008120 Walker A/P-loop; other site 349520008121 ATP binding site [chemical binding]; other site 349520008122 Q-loop/lid; other site 349520008123 ABC transporter signature motif; other site 349520008124 Walker B; other site 349520008125 D-loop; other site 349520008126 H-loop/switch region; other site 349520008127 Protein of unknown function, DUF258; Region: DUF258; pfam03193 349520008128 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 349520008129 Dynamin family; Region: Dynamin_N; pfam00350 349520008130 G1 box; other site 349520008131 GTP/Mg2+ binding site [chemical binding]; other site 349520008132 G2 box; other site 349520008133 Switch I region; other site 349520008134 G3 box; other site 349520008135 Switch II region; other site 349520008136 G4 box; other site 349520008137 G5 box; other site 349520008138 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 349520008139 Dynamin family; Region: Dynamin_N; pfam00350 349520008140 G1 box; other site 349520008141 GTP/Mg2+ binding site [chemical binding]; other site 349520008142 G2 box; other site 349520008143 Switch I region; other site 349520008144 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 349520008145 G3 box; other site 349520008146 Switch II region; other site 349520008147 GTP/Mg2+ binding site [chemical binding]; other site 349520008148 G4 box; other site 349520008149 G5 box; other site 349520008150 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 349520008151 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 349520008152 minor groove reading motif; other site 349520008153 helix-hairpin-helix signature motif; other site 349520008154 substrate binding pocket [chemical binding]; other site 349520008155 active site 349520008156 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 349520008157 Sporulation and spore germination; Region: Germane; pfam10646 349520008158 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520008159 AMIN domain; Region: AMIN; pfam11741 349520008160 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 349520008161 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 349520008162 active site 349520008163 metal binding site [ion binding]; metal-binding site 349520008164 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520008165 AMIN domain; Region: AMIN; pfam11741 349520008166 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 349520008167 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 349520008168 active site 349520008169 metal binding site [ion binding]; metal-binding site 349520008170 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 349520008171 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 349520008172 substrate binding site [chemical binding]; other site 349520008173 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 349520008174 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 349520008175 substrate binding site [chemical binding]; other site 349520008176 ligand binding site [chemical binding]; other site 349520008177 L-aspartate oxidase; Region: nadB; TIGR00551 349520008178 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349520008179 L-aspartate oxidase; Provisional; Region: PRK06175 349520008180 Kelch motif; Region: Kelch_1; pfam01344 349520008181 Kelch motif; Region: Kelch_1; pfam01344 349520008182 Galactose oxidase, central domain; Region: Kelch_3; pfam13415 349520008183 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 349520008184 Kelch domain; Region: Kelch; smart00612 349520008185 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 349520008186 Kelch motif; Region: Kelch_1; pfam01344 349520008187 Galactose oxidase, central domain; Region: Kelch_3; cl02701 349520008188 SPRY domain; Region: SPRY; cl02614 349520008189 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 349520008190 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 349520008191 Helix-turn-helix domain; Region: HTH_38; pfam13936 349520008192 Homeodomain-like domain; Region: HTH_32; pfam13565 349520008193 Integrase core domain; Region: rve; pfam00665 349520008194 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 349520008195 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 349520008196 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 349520008197 [4Fe-4S] binding site [ion binding]; other site 349520008198 molybdopterin cofactor binding site; other site 349520008199 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 349520008200 molybdopterin cofactor binding site; other site 349520008201 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 349520008202 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 349520008203 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 349520008204 4Fe-4S binding domain; Region: Fer4; pfam00037 349520008205 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 349520008206 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 349520008207 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 349520008208 4Fe-4S binding domain; Region: Fer4; pfam00037 349520008209 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 349520008210 Aspartase; Region: Aspartase; cd01357 349520008211 active sites [active] 349520008212 tetramer interface [polypeptide binding]; other site 349520008213 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 349520008214 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 349520008215 G1 box; other site 349520008216 GTP/Mg2+ binding site [chemical binding]; other site 349520008217 Switch I region; other site 349520008218 G2 box; other site 349520008219 Switch II region; other site 349520008220 G3 box; other site 349520008221 G4 box; other site 349520008222 G5 box; other site 349520008223 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 349520008224 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 349520008225 FeS/SAM binding site; other site 349520008226 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 349520008227 biotin synthase; Provisional; Region: PRK07094 349520008228 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 349520008229 FeS/SAM binding site; other site 349520008230 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 349520008231 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 349520008232 dimer interface [polypeptide binding]; other site 349520008233 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 349520008234 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520008235 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520008236 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 349520008237 dimerization interface [polypeptide binding]; other site 349520008238 Predicted amidohydrolase [General function prediction only]; Region: COG0388 349520008239 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 349520008240 putative active site [active] 349520008241 catalytic triad [active] 349520008242 putative dimer interface [polypeptide binding]; other site 349520008243 transaminase; Reviewed; Region: PRK08068 349520008244 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 349520008245 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520008246 homodimer interface [polypeptide binding]; other site 349520008247 catalytic residue [active] 349520008248 gamma-glutamyl kinase; Provisional; Region: PRK05429 349520008249 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 349520008250 nucleotide binding site [chemical binding]; other site 349520008251 homotetrameric interface [polypeptide binding]; other site 349520008252 putative phosphate binding site [ion binding]; other site 349520008253 putative allosteric binding site; other site 349520008254 PUA domain; Region: PUA; pfam01472 349520008255 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 349520008256 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 349520008257 putative catalytic cysteine [active] 349520008258 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 349520008259 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 349520008260 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Reviewed; Region: mtnW; PRK09549 349520008261 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Region: RLP_DK-MTP-1-P-enolase; cd08209 349520008262 dimer interface [polypeptide binding]; other site 349520008263 active site 349520008264 catalytic residue [active] 349520008265 metal binding site [ion binding]; metal-binding site 349520008266 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 349520008267 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 349520008268 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 349520008269 intersubunit interface [polypeptide binding]; other site 349520008270 active site 349520008271 Zn2+ binding site [ion binding]; other site 349520008272 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 349520008273 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 349520008274 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349520008275 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 349520008276 DNA binding residues [nucleotide binding] 349520008277 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 349520008278 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 349520008279 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 349520008280 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 349520008281 putative dimer interface [polypeptide binding]; other site 349520008282 putative anticodon binding site; other site 349520008283 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 349520008284 homodimer interface [polypeptide binding]; other site 349520008285 motif 1; other site 349520008286 motif 2; other site 349520008287 active site 349520008288 motif 3; other site 349520008289 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 349520008290 propionate/acetate kinase; Provisional; Region: PRK12379 349520008291 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 349520008292 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 349520008293 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 349520008294 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 349520008295 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 349520008296 Walker A motif; other site 349520008297 ATP binding site [chemical binding]; other site 349520008298 Walker B motif; other site 349520008299 arginine finger; other site 349520008300 Peptidase family M41; Region: Peptidase_M41; pfam01434 349520008301 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 349520008302 active site 349520008303 substrate binding site [chemical binding]; other site 349520008304 ATP binding site [chemical binding]; other site 349520008305 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 349520008306 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 349520008307 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 349520008308 active site 349520008309 putative substrate binding pocket [chemical binding]; other site 349520008310 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 349520008311 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 349520008312 CoA binding domain; Region: CoA_binding; pfam02629 349520008313 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 349520008314 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 349520008315 active site 349520008316 catalytic site [active] 349520008317 substrate binding site [chemical binding]; other site 349520008318 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 349520008319 ATP binding site [chemical binding]; other site 349520008320 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 349520008321 putative Mg++ binding site [ion binding]; other site 349520008322 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 349520008323 TPR repeat; Region: TPR_11; pfam13414 349520008324 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 349520008325 binding surface 349520008326 TPR motif; other site 349520008327 Tetratricopeptide repeat; Region: TPR_12; pfam13424 349520008328 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 349520008329 tetramerization interface [polypeptide binding]; other site 349520008330 active site 349520008331 pantoate--beta-alanine ligase; Region: panC; TIGR00018 349520008332 Pantoate-beta-alanine ligase; Region: PanC; cd00560 349520008333 active site 349520008334 ATP-binding site [chemical binding]; other site 349520008335 pantoate-binding site; other site 349520008336 HXXH motif; other site 349520008337 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 349520008338 oligomerization interface [polypeptide binding]; other site 349520008339 active site 349520008340 metal binding site [ion binding]; metal-binding site 349520008341 Biotin operon repressor [Transcription]; Region: BirA; COG1654 349520008342 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 349520008343 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 349520008344 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 349520008345 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 349520008346 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 349520008347 active site 349520008348 NTP binding site [chemical binding]; other site 349520008349 metal binding triad [ion binding]; metal-binding site 349520008350 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 349520008351 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 349520008352 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 349520008353 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 349520008354 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 349520008355 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 349520008356 active site 349520008357 dimer interfaces [polypeptide binding]; other site 349520008358 catalytic residues [active] 349520008359 dihydrodipicolinate reductase; Provisional; Region: PRK00048 349520008360 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 349520008361 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 349520008362 TPR repeat; Region: TPR_11; pfam13414 349520008363 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 349520008364 binding surface 349520008365 TPR motif; other site 349520008366 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 349520008367 TPR motif; other site 349520008368 binding surface 349520008369 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 349520008370 homodimer interface [polypeptide binding]; other site 349520008371 metal binding site [ion binding]; metal-binding site 349520008372 Uncharacterized conserved protein [Function unknown]; Region: COG1284 349520008373 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 349520008374 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 349520008375 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 349520008376 Sporulation protein YpjB (SpoYpjB); Region: Spore_YpjB; cl09800 349520008377 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520008378 Coenzyme A binding pocket [chemical binding]; other site 349520008379 Protein of unknown function (DUF1405); Region: DUF1405; cl01798 349520008380 IDEAL domain; Region: IDEAL; pfam08858 349520008381 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 349520008382 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 349520008383 trimer interface [polypeptide binding]; other site 349520008384 putative metal binding site [ion binding]; other site 349520008385 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 349520008386 catalytic core [active] 349520008387 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 349520008388 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349520008389 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 349520008390 DNA binding residues [nucleotide binding] 349520008391 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 349520008392 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349520008393 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 349520008394 prephenate dehydrogenase; Validated; Region: PRK08507 349520008395 prephenate dehydrogenase; Validated; Region: PRK06545 349520008396 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 349520008397 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 349520008398 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 349520008399 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520008400 homodimer interface [polypeptide binding]; other site 349520008401 catalytic residue [active] 349520008402 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 349520008403 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 349520008404 substrate binding site [chemical binding]; other site 349520008405 active site 349520008406 catalytic residues [active] 349520008407 heterodimer interface [polypeptide binding]; other site 349520008408 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 349520008409 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 349520008410 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520008411 catalytic residue [active] 349520008412 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 349520008413 active site 349520008414 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 349520008415 active site 349520008416 ribulose/triose binding site [chemical binding]; other site 349520008417 phosphate binding site [ion binding]; other site 349520008418 substrate (anthranilate) binding pocket [chemical binding]; other site 349520008419 product (indole) binding pocket [chemical binding]; other site 349520008420 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 349520008421 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 349520008422 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 349520008423 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 349520008424 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 349520008425 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 349520008426 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 349520008427 homotrimer interaction site [polypeptide binding]; other site 349520008428 active site 349520008429 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 349520008430 active site 349520008431 dimer interface [polypeptide binding]; other site 349520008432 metal binding site [ion binding]; metal-binding site 349520008433 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 349520008434 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 349520008435 Tetramer interface [polypeptide binding]; other site 349520008436 active site 349520008437 FMN-binding site [chemical binding]; other site 349520008438 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 349520008439 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 349520008440 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 349520008441 S-adenosylmethionine binding site [chemical binding]; other site 349520008442 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 349520008443 active site 349520008444 multimer interface [polypeptide binding]; other site 349520008445 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 349520008446 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 349520008447 substrate binding pocket [chemical binding]; other site 349520008448 chain length determination region; other site 349520008449 substrate-Mg2+ binding site; other site 349520008450 catalytic residues [active] 349520008451 aspartate-rich region 1; other site 349520008452 active site lid residues [active] 349520008453 aspartate-rich region 2; other site 349520008454 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 349520008455 aromatic acid decarboxylase; Validated; Region: PRK05920 349520008456 Flavoprotein; Region: Flavoprotein; pfam02441 349520008457 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 349520008458 UbiA prenyltransferase family; Region: UbiA; pfam01040 349520008459 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 349520008460 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 349520008461 S-adenosylmethionine binding site [chemical binding]; other site 349520008462 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 349520008463 Tryptophan RNA-binding attenuator protein; Region: TrpBP; cl03437 349520008464 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 349520008465 IHF - DNA interface [nucleotide binding]; other site 349520008466 IHF dimer interface [polypeptide binding]; other site 349520008467 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349520008468 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 349520008469 TM-ABC transporter signature motif; other site 349520008470 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 349520008471 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 349520008472 Walker A/P-loop; other site 349520008473 ATP binding site [chemical binding]; other site 349520008474 Q-loop/lid; other site 349520008475 ABC transporter signature motif; other site 349520008476 Walker B; other site 349520008477 D-loop; other site 349520008478 H-loop/switch region; other site 349520008479 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 349520008480 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 349520008481 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 349520008482 putative ligand binding site [chemical binding]; other site 349520008483 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 349520008484 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 349520008485 G1 box; other site 349520008486 GTP/Mg2+ binding site [chemical binding]; other site 349520008487 G2 box; other site 349520008488 Switch I region; other site 349520008489 G3 box; other site 349520008490 Switch II region; other site 349520008491 G4 box; other site 349520008492 G5 box; other site 349520008493 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 349520008494 catalytic loop [active] 349520008495 iron binding site [ion binding]; other site 349520008496 Stage VI sporulation protein F; Region: SpoVIF; pfam14069 349520008497 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 349520008498 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 349520008499 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 349520008500 membrane protein; Provisional; Region: PRK14405 349520008501 GTP-binding protein Der; Reviewed; Region: PRK00093 349520008502 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 349520008503 G1 box; other site 349520008504 GTP/Mg2+ binding site [chemical binding]; other site 349520008505 Switch I region; other site 349520008506 G2 box; other site 349520008507 Switch II region; other site 349520008508 G3 box; other site 349520008509 G4 box; other site 349520008510 G5 box; other site 349520008511 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 349520008512 G1 box; other site 349520008513 GTP/Mg2+ binding site [chemical binding]; other site 349520008514 Switch I region; other site 349520008515 G2 box; other site 349520008516 G3 box; other site 349520008517 Switch II region; other site 349520008518 G4 box; other site 349520008519 G5 box; other site 349520008520 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 349520008521 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 349520008522 RNA binding site [nucleotide binding]; other site 349520008523 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 349520008524 RNA binding site [nucleotide binding]; other site 349520008525 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 349520008526 RNA binding site [nucleotide binding]; other site 349520008527 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 349520008528 RNA binding site [nucleotide binding]; other site 349520008529 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 349520008530 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 349520008531 putative acyl-acceptor binding pocket; other site 349520008532 cytidylate kinase; Provisional; Region: cmk; PRK00023 349520008533 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 349520008534 CMP-binding site; other site 349520008535 The sites determining sugar specificity; other site 349520008536 Flagellar protein YcgR; Region: YcgR_2; pfam12945 349520008537 PilZ domain; Region: PilZ; pfam07238 349520008538 germination protein YpeB; Region: spore_YpeB; TIGR02889 349520008539 Protease prsW family; Region: PrsW-protease; pfam13367 349520008540 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 349520008541 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 349520008542 NodB motif; other site 349520008543 active site 349520008544 catalytic site [active] 349520008545 metal binding site [ion binding]; metal-binding site 349520008546 CAAX protease self-immunity; Region: Abi; pfam02517 349520008547 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 349520008548 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 349520008549 ligand binding site [chemical binding]; other site 349520008550 NAD binding site [chemical binding]; other site 349520008551 dimerization interface [polypeptide binding]; other site 349520008552 catalytic site [active] 349520008553 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 349520008554 putative L-serine binding site [chemical binding]; other site 349520008555 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 349520008556 dimerization interface [polypeptide binding]; other site 349520008557 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 349520008558 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 349520008559 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 349520008560 dimer interface [polypeptide binding]; other site 349520008561 phosphorylation site [posttranslational modification] 349520008562 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 349520008563 ATP binding site [chemical binding]; other site 349520008564 Mg2+ binding site [ion binding]; other site 349520008565 G-X-G motif; other site 349520008566 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520008567 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 349520008568 active site 349520008569 phosphorylation site [posttranslational modification] 349520008570 intermolecular recognition site; other site 349520008571 dimerization interface [polypeptide binding]; other site 349520008572 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 349520008573 DNA binding site [nucleotide binding] 349520008574 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 349520008575 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 349520008576 RNA binding surface [nucleotide binding]; other site 349520008577 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 349520008578 active site 349520008579 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 349520008580 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 349520008581 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 349520008582 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 349520008583 transglutaminase; Provisional; Region: tgl; PRK03187 349520008584 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 349520008585 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 349520008586 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 349520008587 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 349520008588 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 349520008589 homopentamer interface [polypeptide binding]; other site 349520008590 active site 349520008591 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 349520008592 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 349520008593 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 349520008594 Lumazine binding domain; Region: Lum_binding; pfam00677 349520008595 Lumazine binding domain; Region: Lum_binding; pfam00677 349520008596 IDEAL domain; Region: IDEAL; cl07452 349520008597 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 349520008598 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 349520008599 dimer interface [polypeptide binding]; other site 349520008600 PYR/PP interface [polypeptide binding]; other site 349520008601 TPP binding site [chemical binding]; other site 349520008602 substrate binding site [chemical binding]; other site 349520008603 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 349520008604 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 349520008605 TPP-binding site [chemical binding]; other site 349520008606 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 349520008607 pyruvate ferredoxin oxidoreductase subunit gamma/delta; Provisional; Region: PRK14028 349520008608 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 349520008609 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 349520008610 active site 349520008611 diaminopimelate decarboxylase; Region: lysA; TIGR01048 349520008612 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 349520008613 active site 349520008614 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349520008615 substrate binding site [chemical binding]; other site 349520008616 catalytic residues [active] 349520008617 dimer interface [polypeptide binding]; other site 349520008618 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 349520008619 Stage V sporulation protein AB; Region: SpoVAB; pfam13782 349520008620 Stage V sporulation protein AA; Region: SporV_AA; pfam12164 349520008621 sporulation sigma factor SigF; Validated; Region: PRK05572 349520008622 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349520008623 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 349520008624 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 349520008625 DNA binding residues [nucleotide binding] 349520008626 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 349520008627 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 349520008628 ATP binding site [chemical binding]; other site 349520008629 Mg2+ binding site [ion binding]; other site 349520008630 G-X-G motif; other site 349520008631 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 349520008632 anti sigma factor interaction site; other site 349520008633 regulatory phosphorylation site [posttranslational modification]; other site 349520008634 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 349520008635 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 349520008636 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 349520008637 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 349520008638 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 349520008639 purine nucleoside phosphorylase; Provisional; Region: PRK08202 349520008640 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 349520008641 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 349520008642 active site 349520008643 Int/Topo IB signature motif; other site 349520008644 Protein of unknown function (DUF4227); Region: DUF4227; pfam14004 349520008645 ferric uptake regulator; Provisional; Region: fur; PRK09462 349520008646 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 349520008647 metal binding site 2 [ion binding]; metal-binding site 349520008648 putative DNA binding helix; other site 349520008649 metal binding site 1 [ion binding]; metal-binding site 349520008650 dimer interface [polypeptide binding]; other site 349520008651 structural Zn2+ binding site [ion binding]; other site 349520008652 Integral membrane protein DUF95; Region: DUF95; cl00572 349520008653 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 349520008654 PHP-associated; Region: PHP_C; pfam13263 349520008655 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cd00350 349520008656 iron binding site [ion binding]; other site 349520008657 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 349520008658 dimer interface [polypeptide binding]; other site 349520008659 ADP-ribose binding site [chemical binding]; other site 349520008660 active site 349520008661 nudix motif; other site 349520008662 metal binding site [ion binding]; metal-binding site 349520008663 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 349520008664 peptidase T-like protein; Region: PepT-like; TIGR01883 349520008665 metal binding site [ion binding]; metal-binding site 349520008666 putative dimer interface [polypeptide binding]; other site 349520008667 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 349520008668 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 349520008669 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 349520008670 E3 interaction surface; other site 349520008671 lipoyl attachment site [posttranslational modification]; other site 349520008672 e3 binding domain; Region: E3_binding; pfam02817 349520008673 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 349520008674 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 349520008675 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 349520008676 alpha subunit interface [polypeptide binding]; other site 349520008677 TPP binding site [chemical binding]; other site 349520008678 heterodimer interface [polypeptide binding]; other site 349520008679 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349520008680 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 349520008681 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 349520008682 tetramer interface [polypeptide binding]; other site 349520008683 TPP-binding site [chemical binding]; other site 349520008684 heterodimer interface [polypeptide binding]; other site 349520008685 phosphorylation loop region [posttranslational modification] 349520008686 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 349520008687 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349520008688 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349520008689 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349520008690 thymidine kinase; Provisional; Region: PRK04296 349520008691 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 349520008692 SpoOM protein; Region: Spo0M; pfam07070 349520008693 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 349520008694 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 349520008695 dimerization interface [polypeptide binding]; other site 349520008696 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349520008697 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520008698 dimer interface [polypeptide binding]; other site 349520008699 putative CheW interface [polypeptide binding]; other site 349520008700 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 349520008701 S-adenosylmethionine binding site [chemical binding]; other site 349520008702 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 349520008703 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 349520008704 active site 349520008705 phosphorylation site [posttranslational modification] 349520008706 intermolecular recognition site; other site 349520008707 dimerization interface [polypeptide binding]; other site 349520008708 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 349520008709 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 349520008710 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 349520008711 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 349520008712 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 349520008713 Walker A/P-loop; other site 349520008714 ATP binding site [chemical binding]; other site 349520008715 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 349520008716 ABC transporter signature motif; other site 349520008717 Walker B; other site 349520008718 D-loop; other site 349520008719 H-loop/switch region; other site 349520008720 arginine repressor; Provisional; Region: PRK04280 349520008721 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 349520008722 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 349520008723 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 349520008724 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 349520008725 RNA binding surface [nucleotide binding]; other site 349520008726 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 349520008727 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 349520008728 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 349520008729 TPP-binding site; other site 349520008730 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 349520008731 PYR/PP interface [polypeptide binding]; other site 349520008732 dimer interface [polypeptide binding]; other site 349520008733 TPP binding site [chemical binding]; other site 349520008734 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349520008735 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 349520008736 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 349520008737 substrate binding pocket [chemical binding]; other site 349520008738 chain length determination region; other site 349520008739 substrate-Mg2+ binding site; other site 349520008740 catalytic residues [active] 349520008741 aspartate-rich region 1; other site 349520008742 active site lid residues [active] 349520008743 aspartate-rich region 2; other site 349520008744 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 349520008745 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 349520008746 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 349520008747 generic binding surface II; other site 349520008748 generic binding surface I; other site 349520008749 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 349520008750 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 349520008751 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 349520008752 homodimer interface [polypeptide binding]; other site 349520008753 NADP binding site [chemical binding]; other site 349520008754 substrate binding site [chemical binding]; other site 349520008755 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 349520008756 putative RNA binding site [nucleotide binding]; other site 349520008757 Small integral membrane protein (DUF2273); Region: DUF2273; pfam10031 349520008758 Asp23 family; Region: Asp23; cl00574 349520008759 Asp23 family; Region: Asp23; pfam03780 349520008760 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 349520008761 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349520008762 ATP-grasp domain; Region: ATP-grasp_4; cl17255 349520008763 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 349520008764 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 349520008765 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 349520008766 carboxyltransferase (CT) interaction site; other site 349520008767 biotinylation site [posttranslational modification]; other site 349520008768 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 349520008769 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 349520008770 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; pfam09546 349520008771 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 349520008772 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 349520008773 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 349520008774 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 349520008775 NTPase; Region: NTPase_1; cl17478 349520008776 aspartate kinase; Reviewed; Region: PRK06635 349520008777 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 349520008778 putative catalytic residues [active] 349520008779 putative nucleotide binding site [chemical binding]; other site 349520008780 putative aspartate binding site [chemical binding]; other site 349520008781 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 349520008782 putative allosteric regulatory site; other site 349520008783 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 349520008784 elongation factor P; Validated; Region: PRK00529 349520008785 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 349520008786 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 349520008787 RNA binding site [nucleotide binding]; other site 349520008788 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 349520008789 RNA binding site [nucleotide binding]; other site 349520008790 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 349520008791 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 349520008792 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 349520008793 active site 349520008794 Conserved membrane protein YqhR; Region: YqhR; pfam11085 349520008795 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 349520008796 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 349520008797 siderophore binding site; other site 349520008798 Predicted metal-dependent enzyme [General function prediction only]; Region: COG3872 349520008799 Oxygen tolerance; Region: BatD; pfam13584 349520008800 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 349520008801 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 349520008802 active site 349520008803 nucleophile elbow; other site 349520008804 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520008805 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 349520008806 manganese transport transcriptional regulator; Provisional; Region: PRK03902 349520008807 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 349520008808 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 349520008809 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 349520008810 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 349520008811 FeS/SAM binding site; other site 349520008812 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 349520008813 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 349520008814 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 349520008815 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 349520008816 active site 349520008817 HIGH motif; other site 349520008818 KMSKS motif; other site 349520008819 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 349520008820 tRNA binding surface [nucleotide binding]; other site 349520008821 anticodon binding site; other site 349520008822 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 349520008823 dimer interface [polypeptide binding]; other site 349520008824 putative tRNA-binding site [nucleotide binding]; other site 349520008825 Haemolytic domain; Region: Haemolytic; pfam01809 349520008826 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 349520008827 metal binding site 2 [ion binding]; metal-binding site 349520008828 putative DNA binding helix; other site 349520008829 metal binding site 1 [ion binding]; metal-binding site 349520008830 dimer interface [polypeptide binding]; other site 349520008831 structural Zn2+ binding site [ion binding]; other site 349520008832 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520008833 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 349520008834 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 349520008835 FeS/SAM binding site; other site 349520008836 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 349520008837 Pyruvate formate lyase 1; Region: PFL1; cd01678 349520008838 coenzyme A binding site [chemical binding]; other site 349520008839 active site 349520008840 catalytic residues [active] 349520008841 glycine loop; other site 349520008842 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 349520008843 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 349520008844 putative catalytic cysteine [active] 349520008845 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 349520008846 putative active site [active] 349520008847 metal binding site [ion binding]; metal-binding site 349520008848 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 349520008849 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349520008850 ligand binding site [chemical binding]; other site 349520008851 flexible hinge region; other site 349520008852 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 349520008853 putative switch regulator; other site 349520008854 non-specific DNA interactions [nucleotide binding]; other site 349520008855 DNA binding site [nucleotide binding] 349520008856 sequence specific DNA binding site [nucleotide binding]; other site 349520008857 putative cAMP binding site [chemical binding]; other site 349520008858 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 349520008859 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 349520008860 putative active site [active] 349520008861 metal binding site [ion binding]; metal-binding site 349520008862 flagellar operon protein TIGR03826; Region: YvyF 349520008863 Predicted transcriptional regulators [Transcription]; Region: COG1733 349520008864 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 349520008865 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 349520008866 conserved cys residue [active] 349520008867 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 349520008868 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 349520008869 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349520008870 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349520008871 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 349520008872 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 349520008873 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349520008874 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349520008875 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 349520008876 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 349520008877 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520008878 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520008879 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 349520008880 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 349520008881 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349520008882 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349520008883 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 349520008884 Uncharacterized conserved protein [Function unknown]; Region: COG0398 349520008885 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 349520008886 methionine sulfoxide reductase A; Provisional; Region: PRK14054 349520008887 methionine sulfoxide reductase B; Provisional; Region: PRK00222 349520008888 SelR domain; Region: SelR; pfam01641 349520008889 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 349520008890 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 349520008891 Uncharacterized conserved protein [Function unknown]; Region: COG1284 349520008892 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 349520008893 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 349520008894 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 349520008895 EamA-like transporter family; Region: EamA; pfam00892 349520008896 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 349520008897 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 349520008898 Transglycosylase; Region: Transgly; pfam00912 349520008899 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 349520008900 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 349520008901 DNA polymerase IV; Reviewed; Region: PRK03103 349520008902 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 349520008903 active site 349520008904 DNA binding site [nucleotide binding] 349520008905 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 349520008906 Stage VI sporulation protein F; Region: SpoVIF; pfam14069 349520008907 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 349520008908 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 349520008909 generic binding surface II; other site 349520008910 ssDNA binding site; other site 349520008911 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 349520008912 ATP binding site [chemical binding]; other site 349520008913 putative Mg++ binding site [ion binding]; other site 349520008914 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 349520008915 nucleotide binding region [chemical binding]; other site 349520008916 ATP-binding site [chemical binding]; other site 349520008917 EDD domain protein, DegV family; Region: DegV; TIGR00762 349520008918 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 349520008919 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 349520008920 DAK2 domain; Region: Dak2; pfam02734 349520008921 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 349520008922 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 349520008923 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 349520008924 substrate binding site [chemical binding]; other site 349520008925 hexamer interface [polypeptide binding]; other site 349520008926 metal binding site [ion binding]; metal-binding site 349520008927 GTPase RsgA; Reviewed; Region: PRK00098 349520008928 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 349520008929 RNA binding site [nucleotide binding]; other site 349520008930 homodimer interface [polypeptide binding]; other site 349520008931 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 349520008932 GTPase/Zn-binding domain interface [polypeptide binding]; other site 349520008933 GTP/Mg2+ binding site [chemical binding]; other site 349520008934 G4 box; other site 349520008935 G5 box; other site 349520008936 G1 box; other site 349520008937 Switch I region; other site 349520008938 G2 box; other site 349520008939 G3 box; other site 349520008940 Switch II region; other site 349520008941 Catalytic domain of Protein Kinases; Region: PKc; cd00180 349520008942 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 349520008943 active site 349520008944 ATP binding site [chemical binding]; other site 349520008945 substrate binding site [chemical binding]; other site 349520008946 activation loop (A-loop); other site 349520008947 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 349520008948 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 349520008949 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 349520008950 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 349520008951 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 349520008952 active site 349520008953 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 349520008954 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 349520008955 FeS/SAM binding site; other site 349520008956 16S rRNA methyltransferase B; Provisional; Region: PRK14902 349520008957 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 349520008958 putative RNA binding site [nucleotide binding]; other site 349520008959 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 349520008960 S-adenosylmethionine binding site [chemical binding]; other site 349520008961 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 349520008962 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 349520008963 putative active site [active] 349520008964 substrate binding site [chemical binding]; other site 349520008965 putative cosubstrate binding site; other site 349520008966 catalytic site [active] 349520008967 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 349520008968 substrate binding site [chemical binding]; other site 349520008969 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 349520008970 active site 349520008971 catalytic residues [active] 349520008972 metal binding site [ion binding]; metal-binding site 349520008973 primosomal protein N' Region: priA; TIGR00595 349520008974 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 349520008975 ATP binding site [chemical binding]; other site 349520008976 putative Mg++ binding site [ion binding]; other site 349520008977 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 349520008978 nucleotide binding region [chemical binding]; other site 349520008979 ATP-binding site [chemical binding]; other site 349520008980 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 349520008981 Flavoprotein; Region: Flavoprotein; pfam02441 349520008982 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 349520008983 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 349520008984 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 349520008985 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 349520008986 catalytic site [active] 349520008987 G-X2-G-X-G-K; other site 349520008988 hypothetical protein; Provisional; Region: PRK04323 349520008989 hypothetical protein; Provisional; Region: PRK11820 349520008990 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 349520008991 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 349520008992 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 349520008993 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 349520008994 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 349520008995 FAD binding site [chemical binding]; other site 349520008996 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 349520008997 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349520008998 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 349520008999 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 349520009000 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 349520009001 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 349520009002 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 349520009003 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 349520009004 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349520009005 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 349520009006 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 349520009007 motif II; other site 349520009008 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 349520009009 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 349520009010 Domain of unknown function (DUF814); Region: DUF814; pfam05670 349520009011 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 349520009012 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 349520009013 active site 349520009014 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 349520009015 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520009016 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520009017 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 349520009018 putative dimerization interface [polypeptide binding]; other site 349520009019 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; cl11453 349520009020 Protein of unknown function (DUF964); Region: DUF964; pfam06133 349520009021 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 349520009022 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 349520009023 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 349520009024 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 349520009025 ATP binding site [chemical binding]; other site 349520009026 putative Mg++ binding site [ion binding]; other site 349520009027 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 349520009028 nucleotide binding region [chemical binding]; other site 349520009029 ATP-binding site [chemical binding]; other site 349520009030 FOG: CBS domain [General function prediction only]; Region: COG0517 349520009031 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 349520009032 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 349520009033 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 349520009034 metal binding site [ion binding]; metal-binding site 349520009035 dimer interface [polypeptide binding]; other site 349520009036 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 349520009037 Asp23 family; Region: Asp23; pfam03780 349520009038 calcium/proton exchanger (cax); Region: cax; TIGR00378 349520009039 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 349520009040 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 349520009041 hypothetical protein; Provisional; Region: PRK13666 349520009042 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 349520009043 regulatory protein interface [polypeptide binding]; other site 349520009044 regulatory phosphorylation site [posttranslational modification]; other site 349520009045 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 349520009046 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 349520009047 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 349520009048 GAF domain; Region: GAF; pfam01590 349520009049 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 349520009050 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349520009051 metal binding site [ion binding]; metal-binding site 349520009052 active site 349520009053 I-site; other site 349520009054 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 349520009055 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 349520009056 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 349520009057 RNA binding surface [nucleotide binding]; other site 349520009058 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520009059 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520009060 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520009061 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 349520009062 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 349520009063 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 349520009064 active site 349520009065 HIGH motif; other site 349520009066 dimer interface [polypeptide binding]; other site 349520009067 KMSKS motif; other site 349520009068 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 349520009069 RNA binding surface [nucleotide binding]; other site 349520009070 Transglycosylase; Region: Transgly; pfam00912 349520009071 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 349520009072 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 349520009073 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 349520009074 Interdomain contacts; other site 349520009075 Cytokine receptor motif; other site 349520009076 acetyl-CoA synthetase; Provisional; Region: PRK04319 349520009077 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 349520009078 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 349520009079 acyl-activating enzyme (AAE) consensus motif; other site 349520009080 AMP binding site [chemical binding]; other site 349520009081 active site 349520009082 CoA binding site [chemical binding]; other site 349520009083 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520009084 Coenzyme A binding pocket [chemical binding]; other site 349520009085 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 349520009086 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 349520009087 catabolite control protein A; Region: ccpA; TIGR01481 349520009088 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520009089 DNA binding site [nucleotide binding] 349520009090 domain linker motif; other site 349520009091 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 349520009092 dimerization interface [polypeptide binding]; other site 349520009093 effector binding site; other site 349520009094 bacillithiol system protein YtxJ; Region: B_thiol_YtxJ; TIGR04019 349520009095 intracellular protease, PfpI family; Region: PfpI; TIGR01382 349520009096 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 349520009097 proposed catalytic triad [active] 349520009098 conserved cys residue [active] 349520009099 putative transposase OrfB; Reviewed; Region: PHA02517 349520009100 HTH-like domain; Region: HTH_21; pfam13276 349520009101 Integrase core domain; Region: rve; pfam00665 349520009102 Integrase core domain; Region: rve_2; pfam13333 349520009103 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349520009104 Transposase; Region: HTH_Tnp_1; cl17663 349520009105 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 349520009106 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 349520009107 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 349520009108 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 349520009109 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 349520009110 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 349520009111 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 349520009112 active site turn [active] 349520009113 phosphorylation site [posttranslational modification] 349520009114 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 349520009115 HPr interaction site; other site 349520009116 glycerol kinase (GK) interaction site [polypeptide binding]; other site 349520009117 active site 349520009118 phosphorylation site [posttranslational modification] 349520009119 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 349520009120 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 349520009121 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 349520009122 hinge; other site 349520009123 active site 349520009124 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 349520009125 active site residue [active] 349520009126 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 349520009127 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 349520009128 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 349520009129 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4493 349520009130 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 349520009131 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 349520009132 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520009133 putative substrate translocation pore; other site 349520009134 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 349520009135 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 349520009136 homodimer interface [polypeptide binding]; other site 349520009137 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520009138 catalytic residue [active] 349520009139 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 349520009140 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 349520009141 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 349520009142 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 349520009143 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 349520009144 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 349520009145 [2Fe-2S] cluster binding site [ion binding]; other site 349520009146 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 349520009147 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349520009148 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 349520009149 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 349520009150 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 349520009151 ANTAR domain; Region: ANTAR; pfam03861 349520009152 Anthranilate phosphoribosyltransferase [Amino acid transport and metabolism]; Region: TrpD; COG0547 349520009153 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 349520009154 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 349520009155 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 349520009156 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 349520009157 [4Fe-4S] binding site [ion binding]; other site 349520009158 molybdopterin cofactor binding site; other site 349520009159 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 349520009160 molybdopterin cofactor binding site; other site 349520009161 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 349520009162 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349520009163 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 349520009164 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 349520009165 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 349520009166 putative substrate translocation pore; other site 349520009167 malate dehydrogenase; Provisional; Region: PRK13529 349520009168 Malic enzyme, N-terminal domain; Region: malic; pfam00390 349520009169 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 349520009170 NAD(P) binding site [chemical binding]; other site 349520009171 Membrane transport protein; Region: Mem_trans; cl09117 349520009172 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 349520009173 dimerization interface [polypeptide binding]; other site 349520009174 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349520009175 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520009176 dimer interface [polypeptide binding]; other site 349520009177 putative CheW interface [polypeptide binding]; other site 349520009178 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 349520009179 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 349520009180 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 349520009181 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 349520009182 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 349520009183 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520009184 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520009185 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349520009186 ABC-ATPase subunit interface; other site 349520009187 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 349520009188 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520009189 dimer interface [polypeptide binding]; other site 349520009190 conserved gate region; other site 349520009191 putative PBP binding loops; other site 349520009192 ABC-ATPase subunit interface; other site 349520009193 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520009194 Response regulator receiver domain; Region: Response_reg; pfam00072 349520009195 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 349520009196 active site 349520009197 phosphorylation site [posttranslational modification] 349520009198 intermolecular recognition site; other site 349520009199 dimerization interface [polypeptide binding]; other site 349520009200 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520009201 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520009202 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520009203 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 349520009204 dimerization interface [polypeptide binding]; other site 349520009205 Histidine kinase; Region: His_kinase; pfam06580 349520009206 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 349520009207 ATP binding site [chemical binding]; other site 349520009208 Mg2+ binding site [ion binding]; other site 349520009209 G-X-G motif; other site 349520009210 Deoxyribonuclease NucA/NucB; Region: DNase_NucA_NucB; pfam14040 349520009211 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 349520009212 ligand binding site [chemical binding]; other site 349520009213 active site 349520009214 UGI interface [polypeptide binding]; other site 349520009215 catalytic site [active] 349520009216 S-layer homology domain; Region: SLH; pfam00395 349520009217 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 349520009218 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 349520009219 dimer interface [polypeptide binding]; other site 349520009220 anticodon binding site; other site 349520009221 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 349520009222 homodimer interface [polypeptide binding]; other site 349520009223 motif 1; other site 349520009224 active site 349520009225 motif 2; other site 349520009226 GAD domain; Region: GAD; pfam02938 349520009227 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 349520009228 active site 349520009229 motif 3; other site 349520009230 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 349520009231 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 349520009232 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 349520009233 FMN binding site [chemical binding]; other site 349520009234 substrate binding site [chemical binding]; other site 349520009235 putative catalytic residue [active] 349520009236 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 349520009237 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 349520009238 hypothetical protein; Provisional; Region: PRK06194 349520009239 classical (c) SDRs; Region: SDR_c; cd05233 349520009240 NAD(P) binding site [chemical binding]; other site 349520009241 active site 349520009242 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 349520009243 putative NADP binding site [chemical binding]; other site 349520009244 KR domain; Region: KR; pfam08659 349520009245 active site 349520009246 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520009247 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 349520009248 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 349520009249 active site 349520009250 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 349520009251 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 349520009252 KR domain; Region: KR; pfam08659 349520009253 putative NADP binding site [chemical binding]; other site 349520009254 active site 349520009255 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520009256 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520009257 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 349520009258 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 349520009259 active site 349520009260 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 349520009261 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 349520009262 substrate binding site [chemical binding]; other site 349520009263 oxyanion hole (OAH) forming residues; other site 349520009264 trimer interface [polypeptide binding]; other site 349520009265 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 349520009266 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 349520009267 active site 349520009268 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 349520009269 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 349520009270 putative NADP binding site [chemical binding]; other site 349520009271 KR domain; Region: KR; pfam08659 349520009272 active site 349520009273 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 349520009274 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 349520009275 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 349520009276 active site 349520009277 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 349520009278 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 349520009279 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 349520009280 putative NADP binding site [chemical binding]; other site 349520009281 active site 349520009282 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 349520009283 S-adenosylmethionine binding site [chemical binding]; other site 349520009284 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 349520009285 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 349520009286 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 349520009287 active site 349520009288 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 349520009289 S-adenosylmethionine binding site [chemical binding]; other site 349520009290 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 349520009291 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 349520009292 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 349520009293 active site 349520009294 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 349520009295 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 349520009296 putative NADP binding site [chemical binding]; other site 349520009297 active site 349520009298 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 349520009299 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 349520009300 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 349520009301 active site 349520009302 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 349520009303 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 349520009304 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 349520009305 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 349520009306 active site 349520009307 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 349520009308 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 349520009309 putative NADP binding site [chemical binding]; other site 349520009310 KR domain; Region: KR; pfam08659 349520009311 active site 349520009312 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520009313 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 349520009314 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 349520009315 active site 349520009316 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520009317 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 349520009318 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 349520009319 KR domain; Region: KR; pfam08659 349520009320 putative NADP binding site [chemical binding]; other site 349520009321 active site 349520009322 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 349520009323 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 349520009324 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 349520009325 active site 349520009326 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 349520009327 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 349520009328 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 349520009329 acyl-activating enzyme (AAE) consensus motif; other site 349520009330 active site 349520009331 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520009332 Condensation domain; Region: Condensation; pfam00668 349520009333 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520009334 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520009335 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 349520009336 acyl-activating enzyme (AAE) consensus motif; other site 349520009337 AMP binding site [chemical binding]; other site 349520009338 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520009339 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 349520009340 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 349520009341 active site 349520009342 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 349520009343 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 349520009344 putative NADP binding site [chemical binding]; other site 349520009345 active site 349520009346 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 349520009347 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 349520009348 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 349520009349 active site 349520009350 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 349520009351 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 349520009352 substrate binding site [chemical binding]; other site 349520009353 oxyanion hole (OAH) forming residues; other site 349520009354 trimer interface [polypeptide binding]; other site 349520009355 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 349520009356 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 349520009357 substrate binding site [chemical binding]; other site 349520009358 oxyanion hole (OAH) forming residues; other site 349520009359 trimer interface [polypeptide binding]; other site 349520009360 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 349520009361 "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 349520009362 dimer interface [polypeptide binding]; other site 349520009363 active site 349520009364 polyketide beta-ketoacyl:acyl carrier protein synthase; Validated; Region: PRK07103 349520009365 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 349520009366 dimer interface [polypeptide binding]; other site 349520009367 active site 349520009368 acyl carrier protein; Validated; Region: PRK07117 349520009369 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 349520009370 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 349520009371 Transcription antiterminator [Transcription]; Region: NusG; COG0250 349520009372 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cd08000 349520009373 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 349520009374 heterodimer interface [polypeptide binding]; other site 349520009375 homodimer interface [polypeptide binding]; other site 349520009376 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349520009377 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 349520009378 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 349520009379 dimer interface [polypeptide binding]; other site 349520009380 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520009381 catalytic residue [active] 349520009382 Transposase domain (DUF772); Region: DUF772; pfam05598 349520009383 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349520009384 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 349520009385 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 349520009386 DNA binding site [nucleotide binding] 349520009387 substrate interaction site [chemical binding]; other site 349520009388 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 349520009389 ParB-like nuclease domain; Region: ParBc; cl02129 349520009390 DEAD-like helicases superfamily; Region: DEXDc; smart00487 349520009391 Terminase small subunit; Region: Terminase_2; pfam03592 349520009392 Phage terminase small subunit; Region: Phage_terminase; pfam10668 349520009393 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 349520009394 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 349520009395 PAS domain; Region: PAS_9; pfam13426 349520009396 putative active site [active] 349520009397 heme pocket [chemical binding]; other site 349520009398 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520009399 dimer interface [polypeptide binding]; other site 349520009400 putative CheW interface [polypeptide binding]; other site 349520009401 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 349520009402 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 349520009403 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 349520009404 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 349520009405 Ligand Binding Site [chemical binding]; other site 349520009406 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 349520009407 non-specific DNA binding site [nucleotide binding]; other site 349520009408 salt bridge; other site 349520009409 sequence-specific DNA binding site [nucleotide binding]; other site 349520009410 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 349520009411 DNA polymerase III subunit beta; Validated; Region: PRK05643 349520009412 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 349520009413 putative DNA binding surface [nucleotide binding]; other site 349520009414 dimer interface [polypeptide binding]; other site 349520009415 beta-clamp/clamp loader binding surface; other site 349520009416 beta-clamp/translesion DNA polymerase binding surface; other site 349520009417 primosomal protein DnaI; Reviewed; Region: PRK08939 349520009418 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 349520009419 Walker A motif; other site 349520009420 ATP binding site [chemical binding]; other site 349520009421 Walker B motif; other site 349520009422 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349520009423 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349520009424 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349520009425 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 349520009426 Int/Topo IB signature motif; other site 349520009427 hypothetical protein; Provisional; Region: PRK02237 349520009428 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 349520009429 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 349520009430 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 349520009431 dimer interface [polypeptide binding]; other site 349520009432 active site 349520009433 metal binding site [ion binding]; metal-binding site 349520009434 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 349520009435 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 349520009436 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 349520009437 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 349520009438 dimer interface [polypeptide binding]; other site 349520009439 active site 349520009440 CoA binding pocket [chemical binding]; other site 349520009441 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 349520009442 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 349520009443 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 349520009444 Cupin; Region: Cupin_1; smart00835 349520009445 Sm and related proteins; Region: Sm_like; cl00259 349520009446 Sm1 motif; other site 349520009447 Protein of unknown function (DUF2642); Region: DUF2642; pfam10842 349520009448 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520009449 AMIN domain; Region: AMIN; pfam11741 349520009450 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cd00599 349520009451 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 349520009452 active site 349520009453 Predicted membrane protein [Function unknown]; Region: COG2855 349520009454 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520009455 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520009456 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 349520009457 putative dimerization interface [polypeptide binding]; other site 349520009458 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 349520009459 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 349520009460 inhibitor binding site; inhibition site 349520009461 active site 349520009462 Pectinesterase; Region: Pectinesterase; pfam01095 349520009463 putative pectinesterase; Region: PLN02432; cl01911 349520009464 Abhydrolase family; Region: Abhydrolase_7; pfam12715 349520009465 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 349520009466 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 349520009467 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 349520009468 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520009469 Predicted integral membrane protein [Function unknown]; Region: COG5578 349520009470 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 349520009471 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520009472 dimer interface [polypeptide binding]; other site 349520009473 conserved gate region; other site 349520009474 ABC-ATPase subunit interface; other site 349520009475 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520009476 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520009477 dimer interface [polypeptide binding]; other site 349520009478 conserved gate region; other site 349520009479 putative PBP binding loops; other site 349520009480 ABC-ATPase subunit interface; other site 349520009481 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520009482 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520009483 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520009484 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 349520009485 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 349520009486 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 349520009487 active site 349520009488 catalytic triad [active] 349520009489 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 349520009490 Coenzyme A binding pocket [chemical binding]; other site 349520009491 hypothetical protein; Provisional; Region: PRK10279 349520009492 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349520009493 active site 349520009494 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 349520009495 active site 349520009496 dimer interface [polypeptide binding]; other site 349520009497 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 349520009498 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349520009499 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 349520009500 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 349520009501 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349520009502 ATP-grasp domain; Region: ATP-grasp_4; cl17255 349520009503 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 349520009504 IMP binding site; other site 349520009505 dimer interface [polypeptide binding]; other site 349520009506 interdomain contacts; other site 349520009507 partial ornithine binding site; other site 349520009508 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 349520009509 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 349520009510 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 349520009511 catalytic site [active] 349520009512 subunit interface [polypeptide binding]; other site 349520009513 dihydroorotase; Validated; Region: pyrC; PRK09357 349520009514 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 349520009515 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 349520009516 active site 349520009517 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 349520009518 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 349520009519 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 349520009520 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 349520009521 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349520009522 active site 349520009523 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 349520009524 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 349520009525 RNA binding surface [nucleotide binding]; other site 349520009526 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 349520009527 active site 349520009528 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 349520009529 lipoprotein signal peptidase; Provisional; Region: PRK14787 349520009530 regulatory protein, yteA family; Region: bacill_yteA; TIGR02890 349520009531 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 349520009532 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349520009533 active site 349520009534 HIGH motif; other site 349520009535 nucleotide binding site [chemical binding]; other site 349520009536 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 349520009537 active site 349520009538 KMSKS motif; other site 349520009539 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 349520009540 tRNA binding surface [nucleotide binding]; other site 349520009541 anticodon binding site; other site 349520009542 DivIVA protein; Region: DivIVA; pfam05103 349520009543 DivIVA domain; Region: DivI1A_domain; TIGR03544 349520009544 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 349520009545 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 349520009546 RNA binding surface [nucleotide binding]; other site 349520009547 YGGT family; Region: YGGT; pfam02325 349520009548 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 349520009549 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 349520009550 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349520009551 catalytic residue [active] 349520009552 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 349520009553 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 349520009554 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 349520009555 sporulation sigma factor SigG; Reviewed; Region: PRK08215 349520009556 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349520009557 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 349520009558 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 349520009559 DNA binding residues [nucleotide binding] 349520009560 sporulation sigma factor SigE; Reviewed; Region: PRK08301 349520009561 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349520009562 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 349520009563 DNA binding residues [nucleotide binding] 349520009564 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 349520009565 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 349520009566 cell division protein FtsZ; Validated; Region: PRK09330 349520009567 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 349520009568 nucleotide binding site [chemical binding]; other site 349520009569 SulA interaction site; other site 349520009570 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 349520009571 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 349520009572 nucleotide binding site [chemical binding]; other site 349520009573 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 349520009574 Cell division protein FtsA; Region: FtsA; pfam14450 349520009575 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 349520009576 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 349520009577 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 349520009578 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 349520009579 hinge; other site 349520009580 active site 349520009581 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 349520009582 FAD binding domain; Region: FAD_binding_4; pfam01565 349520009583 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 349520009584 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 349520009585 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 349520009586 active site 349520009587 homodimer interface [polypeptide binding]; other site 349520009588 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 349520009589 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 349520009590 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349520009591 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349520009592 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 349520009593 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 349520009594 Mg++ binding site [ion binding]; other site 349520009595 putative catalytic motif [active] 349520009596 putative substrate binding site [chemical binding]; other site 349520009597 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 349520009598 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 349520009599 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349520009600 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349520009601 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 349520009602 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 349520009603 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349520009604 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349520009605 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 349520009606 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 349520009607 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 349520009608 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cd06573 349520009609 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 349520009610 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 349520009611 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 349520009612 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 349520009613 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 349520009614 Cell division protein FtsL; Region: FtsL; cl11433 349520009615 MraW methylase family; Region: Methyltransf_5; pfam01795 349520009616 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 349520009617 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 349520009618 MraZ protein; Region: MraZ; pfam02381 349520009619 MraZ protein; Region: MraZ; pfam02381 349520009620 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 349520009621 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 349520009622 homotetramer interface [polypeptide binding]; other site 349520009623 ligand binding site [chemical binding]; other site 349520009624 catalytic site [active] 349520009625 NAD binding site [chemical binding]; other site 349520009626 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 349520009627 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 349520009628 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 349520009629 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349520009630 Walker A/P-loop; other site 349520009631 ATP binding site [chemical binding]; other site 349520009632 Q-loop/lid; other site 349520009633 ABC transporter signature motif; other site 349520009634 Walker B; other site 349520009635 D-loop; other site 349520009636 H-loop/switch region; other site 349520009637 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 349520009638 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 349520009639 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 349520009640 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520009641 dimer interface [polypeptide binding]; other site 349520009642 conserved gate region; other site 349520009643 putative PBP binding loops; other site 349520009644 ABC-ATPase subunit interface; other site 349520009645 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349520009646 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520009647 dimer interface [polypeptide binding]; other site 349520009648 conserved gate region; other site 349520009649 putative PBP binding loops; other site 349520009650 ABC-ATPase subunit interface; other site 349520009651 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 349520009652 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 349520009653 peptide binding site [polypeptide binding]; other site 349520009654 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 349520009655 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 349520009656 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 349520009657 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 349520009658 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 349520009659 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 349520009660 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 349520009661 putative active site [active] 349520009662 PhoH-like protein; Region: PhoH; pfam02562 349520009663 Transcriptional regulator [Transcription]; Region: LytR; COG1316 349520009664 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 349520009665 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 349520009666 putative GEF interaction site [polypeptide binding]; other site 349520009667 G1 box; other site 349520009668 GTP/Mg2+ binding site [chemical binding]; other site 349520009669 Switch I region; other site 349520009670 G2 box; other site 349520009671 G3 box; other site 349520009672 Switch II region; other site 349520009673 G4 box; other site 349520009674 G5 box; other site 349520009675 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 349520009676 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 349520009677 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 349520009678 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 349520009679 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 349520009680 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 349520009681 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 349520009682 Ligand Binding Site [chemical binding]; other site 349520009683 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 349520009684 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 349520009685 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349520009686 catalytic residue [active] 349520009687 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 349520009688 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 349520009689 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349520009690 catalytic residue [active] 349520009691 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 349520009692 Protein of unknown function (DUF3907); Region: DUF3907; pfam13047 349520009693 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 349520009694 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 349520009695 active site 349520009696 catalytic triad [active] 349520009697 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 349520009698 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520009699 DNA-binding site [nucleotide binding]; DNA binding site 349520009700 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 349520009701 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520009702 homodimer interface [polypeptide binding]; other site 349520009703 catalytic residue [active] 349520009704 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 349520009705 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 349520009706 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520009707 homodimer interface [polypeptide binding]; other site 349520009708 catalytic residue [active] 349520009709 putative transposase OrfB; Reviewed; Region: PHA02517 349520009710 HTH-like domain; Region: HTH_21; pfam13276 349520009711 Integrase core domain; Region: rve; pfam00665 349520009712 Integrase core domain; Region: rve_2; pfam13333 349520009713 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349520009714 Transposase; Region: HTH_Tnp_1; cl17663 349520009715 Uncharacterized conserved protein [Function unknown]; Region: COG0327 349520009716 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 349520009717 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 349520009718 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 349520009719 Uncharacterized conserved protein [Function unknown]; Region: COG0327 349520009720 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 349520009721 Family of unknown function (DUF633); Region: DUF633; pfam04816 349520009722 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 349520009723 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 349520009724 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 349520009725 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 349520009726 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349520009727 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 349520009728 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 349520009729 DNA binding residues [nucleotide binding] 349520009730 DNA primase; Validated; Region: dnaG; PRK05667 349520009731 CHC2 zinc finger; Region: zf-CHC2; pfam01807 349520009732 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 349520009733 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 349520009734 active site 349520009735 metal binding site [ion binding]; metal-binding site 349520009736 interdomain interaction site; other site 349520009737 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 349520009738 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 349520009739 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 349520009740 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 349520009741 dimer interface [polypeptide binding]; other site 349520009742 motif 1; other site 349520009743 active site 349520009744 motif 2; other site 349520009745 motif 3; other site 349520009746 Recombination protein O N terminal; Region: RecO_N; pfam11967 349520009747 DNA repair protein RecO; Region: reco; TIGR00613 349520009748 Recombination protein O C terminal; Region: RecO_C; pfam02565 349520009749 GTPase Era; Reviewed; Region: era; PRK00089 349520009750 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 349520009751 G1 box; other site 349520009752 GTP/Mg2+ binding site [chemical binding]; other site 349520009753 Switch I region; other site 349520009754 G2 box; other site 349520009755 Switch II region; other site 349520009756 G3 box; other site 349520009757 G4 box; other site 349520009758 G5 box; other site 349520009759 KH domain; Region: KH_2; pfam07650 349520009760 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 349520009761 metal-binding heat shock protein; Provisional; Region: PRK00016 349520009762 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 349520009763 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 349520009764 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 349520009765 Zn2+ binding site [ion binding]; other site 349520009766 Mg2+ binding site [ion binding]; other site 349520009767 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 349520009768 PhoH-like protein; Region: PhoH; pfam02562 349520009769 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 349520009770 YabP family; Region: YabP; cl06766 349520009771 amino acid transporter; Region: 2A0306; TIGR00909 349520009772 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 349520009773 hypothetical protein; Provisional; Region: PRK13665 349520009774 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 349520009775 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 349520009776 dimer interface [polypeptide binding]; other site 349520009777 active site residues [active] 349520009778 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 349520009779 Yqey-like protein; Region: YqeY; pfam09424 349520009780 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 349520009781 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 349520009782 nucleotide binding site/active site [active] 349520009783 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 349520009784 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520009785 DNA-binding site [nucleotide binding]; DNA binding site 349520009786 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 349520009787 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520009788 homodimer interface [polypeptide binding]; other site 349520009789 catalytic residue [active] 349520009790 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 349520009791 AAA domain; Region: AAA_23; pfam13476 349520009792 Walker A/P-loop; other site 349520009793 ATP binding site [chemical binding]; other site 349520009794 Q-loop/lid; other site 349520009795 ABC transporter signature motif; other site 349520009796 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 349520009797 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520009798 ABC transporter signature motif; other site 349520009799 Walker B; other site 349520009800 D-loop; other site 349520009801 H-loop/switch region; other site 349520009802 exonuclease subunit SbcD; Provisional; Region: PRK10966 349520009803 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 349520009804 active site 349520009805 metal binding site [ion binding]; metal-binding site 349520009806 DNA binding site [nucleotide binding] 349520009807 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 349520009808 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 349520009809 Part of AAA domain; Region: AAA_19; pfam13245 349520009810 Family description; Region: UvrD_C_2; pfam13538 349520009811 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 349520009812 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 349520009813 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 349520009814 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 349520009815 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 349520009816 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 349520009817 putative RNA binding site [nucleotide binding]; other site 349520009818 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 349520009819 S-adenosylmethionine binding site [chemical binding]; other site 349520009820 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 349520009821 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 349520009822 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 349520009823 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 349520009824 active site 349520009825 Ap6A binding site [chemical binding]; other site 349520009826 nudix motif; other site 349520009827 metal binding site [ion binding]; metal-binding site 349520009828 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 349520009829 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 349520009830 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 349520009831 FeS/SAM binding site; other site 349520009832 TRAM domain; Region: TRAM; cl01282 349520009833 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 349520009834 RNA methyltransferase, RsmE family; Region: TIGR00046 349520009835 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 349520009836 Peptidase family M50; Region: Peptidase_M50; pfam02163 349520009837 active site 349520009838 putative substrate binding region [chemical binding]; other site 349520009839 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 349520009840 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 349520009841 S-adenosylmethionine binding site [chemical binding]; other site 349520009842 YfhD-like protein; Region: YfhD; pfam14151 349520009843 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 349520009844 Malic enzyme, N-terminal domain; Region: malic; pfam00390 349520009845 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 349520009846 putative NAD(P) binding site [chemical binding]; other site 349520009847 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 349520009848 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 349520009849 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 349520009850 active site 349520009851 phosphorylation site [posttranslational modification] 349520009852 intermolecular recognition site; other site 349520009853 dimerization interface [polypeptide binding]; other site 349520009854 sensory histidine kinase DcuS; Provisional; Region: PRK11086 349520009855 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 349520009856 ATP binding site [chemical binding]; other site 349520009857 Mg2+ binding site [ion binding]; other site 349520009858 G-X-G motif; other site 349520009859 chaperone protein DnaJ; Provisional; Region: PRK14280 349520009860 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 349520009861 HSP70 interaction site [polypeptide binding]; other site 349520009862 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 349520009863 substrate binding site [polypeptide binding]; other site 349520009864 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 349520009865 Zn binding sites [ion binding]; other site 349520009866 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 349520009867 dimer interface [polypeptide binding]; other site 349520009868 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 349520009869 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 349520009870 nucleotide binding site [chemical binding]; other site 349520009871 NEF interaction site [polypeptide binding]; other site 349520009872 SBD interface [polypeptide binding]; other site 349520009873 GrpE; Region: GrpE; pfam01025 349520009874 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 349520009875 dimer interface [polypeptide binding]; other site 349520009876 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 349520009877 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 349520009878 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 349520009879 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520009880 Coenzyme A binding pocket [chemical binding]; other site 349520009881 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 349520009882 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 349520009883 FeS/SAM binding site; other site 349520009884 HemN C-terminal domain; Region: HemN_C; pfam06969 349520009885 GTP-binding protein LepA; Provisional; Region: PRK05433 349520009886 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 349520009887 G1 box; other site 349520009888 putative GEF interaction site [polypeptide binding]; other site 349520009889 GTP/Mg2+ binding site [chemical binding]; other site 349520009890 Switch I region; other site 349520009891 G2 box; other site 349520009892 G3 box; other site 349520009893 Switch II region; other site 349520009894 G4 box; other site 349520009895 G5 box; other site 349520009896 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 349520009897 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 349520009898 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 349520009899 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 349520009900 stage II sporulation protein P; Region: spore_II_P; TIGR02867 349520009901 germination protease; Provisional; Region: PRK02858 349520009902 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 349520009903 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 349520009904 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 349520009905 Putative zinc-finger; Region: zf-HC2; pfam13490 349520009906 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 349520009907 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349520009908 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 349520009909 DNA binding residues [nucleotide binding] 349520009910 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 349520009911 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 349520009912 putative ligand binding residues [chemical binding]; other site 349520009913 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 349520009914 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 349520009915 Competence protein; Region: Competence; pfam03772 349520009916 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 349520009917 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 349520009918 catalytic motif [active] 349520009919 Zn binding site [ion binding]; other site 349520009920 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 349520009921 Helix-hairpin-helix motif; Region: HHH; pfam00633 349520009922 late competence protein ComER; Validated; Region: PRK07680 349520009923 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 349520009924 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 349520009925 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 349520009926 HIGH motif; other site 349520009927 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 349520009928 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349520009929 active site 349520009930 KMSKS motif; other site 349520009931 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 349520009932 tRNA binding surface [nucleotide binding]; other site 349520009933 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 349520009934 active site 1 [active] 349520009935 dimer interface [polypeptide binding]; other site 349520009936 hexamer interface [polypeptide binding]; other site 349520009937 active site 2 [active] 349520009938 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 349520009939 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 349520009940 S-adenosylmethionine binding site [chemical binding]; other site 349520009941 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 349520009942 S1 domain; Region: S1_2; pfam13509 349520009943 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 349520009944 RNA binding site [nucleotide binding]; other site 349520009945 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 349520009946 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 349520009947 Zn2+ binding site [ion binding]; other site 349520009948 Mg2+ binding site [ion binding]; other site 349520009949 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 349520009950 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 349520009951 active site 349520009952 (T/H)XGH motif; other site 349520009953 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 349520009954 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 349520009955 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 349520009956 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 349520009957 shikimate binding site; other site 349520009958 NAD(P) binding site [chemical binding]; other site 349520009959 GTPase YqeH; Provisional; Region: PRK13796 349520009960 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 349520009961 GTP/Mg2+ binding site [chemical binding]; other site 349520009962 G4 box; other site 349520009963 G5 box; other site 349520009964 G1 box; other site 349520009965 Switch I region; other site 349520009966 G2 box; other site 349520009967 G3 box; other site 349520009968 Switch II region; other site 349520009969 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 349520009970 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 349520009971 active site 349520009972 motif I; other site 349520009973 motif II; other site 349520009974 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 349520009975 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 349520009976 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 349520009977 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 349520009978 Protein of unknown function DUF58; Region: DUF58; pfam01882 349520009979 MoxR-like ATPases [General function prediction only]; Region: COG0714 349520009980 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 349520009981 Walker A motif; other site 349520009982 ATP binding site [chemical binding]; other site 349520009983 Walker B motif; other site 349520009984 arginine finger; other site 349520009985 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 349520009986 stage V sporulation protein AD; Validated; Region: PRK08304 349520009987 stage V sporulation protein AD; Provisional; Region: PRK12404 349520009988 SpoVA protein; Region: SpoVA; cl04298 349520009989 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 349520009990 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 349520009991 oligomer interface [polypeptide binding]; other site 349520009992 active site 349520009993 metal binding site [ion binding]; metal-binding site 349520009994 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 349520009995 Endoglucanase C-terminal domain/subunit and related proteins [Carbohydrate transport and metabolism]; Region: COG4305 349520009996 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 349520009997 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520009998 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520009999 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520010000 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 349520010001 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520010002 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520010003 dimer interface [polypeptide binding]; other site 349520010004 conserved gate region; other site 349520010005 putative PBP binding loops; other site 349520010006 ABC-ATPase subunit interface; other site 349520010007 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 349520010008 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520010009 dimer interface [polypeptide binding]; other site 349520010010 conserved gate region; other site 349520010011 ABC-ATPase subunit interface; other site 349520010012 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520010013 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 349520010014 EamA-like transporter family; Region: EamA; pfam00892 349520010015 EamA-like transporter family; Region: EamA; pfam00892 349520010016 Uncharacterized conserved protein [Function unknown]; Region: COG1434 349520010017 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 349520010018 putative active site [active] 349520010019 Uncharacterized conserved protein [Function unknown]; Region: COG1683 349520010020 sporulation sigma factor SigK; Reviewed; Region: PRK05803 349520010021 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349520010022 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 349520010023 DNA binding residues [nucleotide binding] 349520010024 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 349520010025 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 349520010026 Interdomain contacts; other site 349520010027 Cytokine receptor motif; other site 349520010028 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 349520010029 Interdomain contacts; other site 349520010030 Cytokine receptor motif; other site 349520010031 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 349520010032 Interdomain contacts; other site 349520010033 Cytokine receptor motif; other site 349520010034 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 349520010035 Interdomain contacts; other site 349520010036 Cytokine receptor motif; other site 349520010037 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 349520010038 Interdomain contacts; other site 349520010039 Cytokine receptor motif; other site 349520010040 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 349520010041 Interdomain contacts; other site 349520010042 Cytokine receptor motif; other site 349520010043 S-layer homology domain; Region: SLH; pfam00395 349520010044 S-layer homology domain; Region: SLH; pfam00395 349520010045 S-layer homology domain; Region: SLH; pfam00395 349520010046 MG2 domain; Region: A2M_N; pfam01835 349520010047 AAA domain; Region: AAA_33; pfam13671 349520010048 tRNAHis guanylyltransferase; Region: Thg1; pfam04446 349520010049 Thg1 C terminal domain; Region: Thg1C; pfam14413 349520010050 Domain of unknown function (DUF4395); Region: DUF4395; pfam14340 349520010051 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 349520010052 MarR family; Region: MarR_2; cl17246 349520010053 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520010054 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 349520010055 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 349520010056 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 349520010057 active site 349520010058 Right handed beta helix region; Region: Beta_helix; pfam13229 349520010059 Disaggregatase related; Region: Disaggr_assoc; pfam08480 349520010060 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 349520010061 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520010062 dimer interface [polypeptide binding]; other site 349520010063 ABC-ATPase subunit interface; other site 349520010064 putative PBP binding loops; other site 349520010065 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 349520010066 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 349520010067 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 349520010068 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 349520010069 ATP binding site [chemical binding]; other site 349520010070 substrate interface [chemical binding]; other site 349520010071 Ubiquitin-like proteins; Region: UBQ; cl00155 349520010072 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 349520010073 MoaE homodimer interface [polypeptide binding]; other site 349520010074 MoaD interaction [polypeptide binding]; other site 349520010075 active site residues [active] 349520010076 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 349520010077 MoaE interaction surface [polypeptide binding]; other site 349520010078 MoeB interaction surface [polypeptide binding]; other site 349520010079 thiocarboxylated glycine; other site 349520010080 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 349520010081 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 349520010082 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 349520010083 FeS/SAM binding site; other site 349520010084 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 349520010085 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 349520010086 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 349520010087 catalytic loop [active] 349520010088 iron binding site [ion binding]; other site 349520010089 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 349520010090 4Fe-4S binding domain; Region: Fer4; pfam00037 349520010091 4Fe-4S binding domain; Region: Fer4; pfam00037 349520010092 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 349520010093 [4Fe-4S] binding site [ion binding]; other site 349520010094 molybdopterin cofactor binding site; other site 349520010095 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 349520010096 molybdopterin cofactor binding site; other site 349520010097 Uncharacterized conserved protein [Function unknown]; Region: COG2427 349520010098 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 349520010099 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 349520010100 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520010101 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520010102 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 349520010103 dimerization interface [polypeptide binding]; other site 349520010104 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349520010105 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520010106 dimer interface [polypeptide binding]; other site 349520010107 putative CheW interface [polypeptide binding]; other site 349520010108 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 349520010109 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 349520010110 ligand binding site [chemical binding]; other site 349520010111 Restriction endonuclease; Region: Mrr_cat; pfam04471 349520010112 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 349520010113 Aspartase; Region: Aspartase; cd01357 349520010114 active sites [active] 349520010115 tetramer interface [polypeptide binding]; other site 349520010116 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 349520010117 generic binding surface I; other site 349520010118 generic binding surface II; other site 349520010119 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 349520010120 putative catalytic site [active] 349520010121 putative metal binding site [ion binding]; other site 349520010122 putative phosphate binding site [ion binding]; other site 349520010123 aminotransferase A; Validated; Region: PRK07683 349520010124 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 349520010125 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520010126 homodimer interface [polypeptide binding]; other site 349520010127 catalytic residue [active] 349520010128 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 349520010129 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520010130 H-loop/switch region; other site 349520010131 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 349520010132 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 349520010133 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520010134 dimer interface [polypeptide binding]; other site 349520010135 conserved gate region; other site 349520010136 putative PBP binding loops; other site 349520010137 ABC-ATPase subunit interface; other site 349520010138 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520010139 dimer interface [polypeptide binding]; other site 349520010140 conserved gate region; other site 349520010141 putative PBP binding loops; other site 349520010142 ABC-ATPase subunit interface; other site 349520010143 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349520010144 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520010145 Walker A/P-loop; other site 349520010146 ATP binding site [chemical binding]; other site 349520010147 Q-loop/lid; other site 349520010148 ABC transporter signature motif; other site 349520010149 Walker B; other site 349520010150 D-loop; other site 349520010151 H-loop/switch region; other site 349520010152 TOBE domain; Region: TOBE_2; pfam08402 349520010153 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 349520010154 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 349520010155 metal binding site [ion binding]; metal-binding site 349520010156 putative dimer interface [polypeptide binding]; other site 349520010157 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 349520010158 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 349520010159 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 349520010160 trimer interface [polypeptide binding]; other site 349520010161 active site 349520010162 substrate binding site [chemical binding]; other site 349520010163 CoA binding site [chemical binding]; other site 349520010164 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 349520010165 EamA-like transporter family; Region: EamA; pfam00892 349520010166 EamA-like transporter family; Region: EamA; pfam00892 349520010167 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 349520010168 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 349520010169 active site residue [active] 349520010170 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 349520010171 active site residue [active] 349520010172 DinB superfamily; Region: DinB_2; pfam12867 349520010173 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 349520010174 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520010175 Coenzyme A binding pocket [chemical binding]; other site 349520010176 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349520010177 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349520010178 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349520010179 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349520010180 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349520010181 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349520010182 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349520010183 Helix-turn-helix domain; Region: HTH_17; pfam12728 349520010184 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520010185 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 349520010186 Coenzyme A binding pocket [chemical binding]; other site 349520010187 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520010188 Coenzyme A binding pocket [chemical binding]; other site 349520010189 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 349520010190 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 349520010191 non-specific DNA binding site [nucleotide binding]; other site 349520010192 salt bridge; other site 349520010193 sequence-specific DNA binding site [nucleotide binding]; other site 349520010194 Protein of unknown function (DUF3782); Region: DUF3782; pfam12644 349520010195 T5orf172 domain; Region: T5orf172; pfam10544 349520010196 Abortive infection C-terminus; Region: Abi_C; pfam14355 349520010197 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 349520010198 integron integrase; Region: integrase_gron; TIGR02249 349520010199 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 349520010200 active site 349520010201 Int/Topo IB signature motif; other site 349520010202 DNA binding site [nucleotide binding] 349520010203 Cache domain; Region: Cache_1; pfam02743 349520010204 HAMP domain; Region: HAMP; pfam00672 349520010205 dimerization interface [polypeptide binding]; other site 349520010206 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349520010207 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520010208 dimer interface [polypeptide binding]; other site 349520010209 putative CheW interface [polypeptide binding]; other site 349520010210 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 349520010211 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 349520010212 substrate binding pocket [chemical binding]; other site 349520010213 chain length determination region; other site 349520010214 substrate-Mg2+ binding site; other site 349520010215 catalytic residues [active] 349520010216 aspartate-rich region 1; other site 349520010217 active site lid residues [active] 349520010218 aspartate-rich region 2; other site 349520010219 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 349520010220 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 349520010221 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 349520010222 Protein of unknown function DUF2625; Region: DUF2625; cl08177 349520010223 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 349520010224 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 349520010225 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 349520010226 putative dimer interface [polypeptide binding]; other site 349520010227 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 349520010228 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349520010229 Walker A/P-loop; other site 349520010230 ATP binding site [chemical binding]; other site 349520010231 Q-loop/lid; other site 349520010232 ABC transporter signature motif; other site 349520010233 Walker B; other site 349520010234 D-loop; other site 349520010235 H-loop/switch region; other site 349520010236 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 349520010237 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 349520010238 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349520010239 Walker A/P-loop; other site 349520010240 ATP binding site [chemical binding]; other site 349520010241 Q-loop/lid; other site 349520010242 ABC transporter signature motif; other site 349520010243 Walker B; other site 349520010244 D-loop; other site 349520010245 H-loop/switch region; other site 349520010246 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 349520010247 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 349520010248 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 349520010249 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 349520010250 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 349520010251 metal binding site [ion binding]; metal-binding site 349520010252 dimer interface [polypeptide binding]; other site 349520010253 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 349520010254 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 349520010255 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 349520010256 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 349520010257 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520010258 dimer interface [polypeptide binding]; other site 349520010259 conserved gate region; other site 349520010260 putative PBP binding loops; other site 349520010261 ABC-ATPase subunit interface; other site 349520010262 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349520010263 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520010264 dimer interface [polypeptide binding]; other site 349520010265 conserved gate region; other site 349520010266 putative PBP binding loops; other site 349520010267 ABC-ATPase subunit interface; other site 349520010268 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 349520010269 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520010270 putative substrate translocation pore; other site 349520010271 S-layer homology domain; Region: SLH; pfam00395 349520010272 S-layer homology domain; Region: SLH; pfam00395 349520010273 S-layer homology domain; Region: SLH; pfam00395 349520010274 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 349520010275 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520010276 PAS domain S-box; Region: sensory_box; TIGR00229 349520010277 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 349520010278 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349520010279 metal binding site [ion binding]; metal-binding site 349520010280 active site 349520010281 I-site; other site 349520010282 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 349520010283 Putative serine esterase (DUF676); Region: DUF676; pfam05057 349520010284 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 349520010285 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520010286 dimer interface [polypeptide binding]; other site 349520010287 putative CheW interface [polypeptide binding]; other site 349520010288 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 349520010289 beta-galactosidase; Region: BGL; TIGR03356 349520010290 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 349520010291 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 349520010292 active site turn [active] 349520010293 phosphorylation site [posttranslational modification] 349520010294 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 349520010295 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 349520010296 HPr interaction site; other site 349520010297 glycerol kinase (GK) interaction site [polypeptide binding]; other site 349520010298 active site 349520010299 phosphorylation site [posttranslational modification] 349520010300 transcriptional antiterminator BglG; Provisional; Region: PRK09772 349520010301 CAT RNA binding domain; Region: CAT_RBD; smart01061 349520010302 PRD domain; Region: PRD; pfam00874 349520010303 PRD domain; Region: PRD; pfam00874 349520010304 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 349520010305 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 349520010306 FeS/SAM binding site; other site 349520010307 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 349520010308 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 349520010309 MoaE interaction surface [polypeptide binding]; other site 349520010310 MoeB interaction surface [polypeptide binding]; other site 349520010311 thiocarboxylated glycine; other site 349520010312 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 349520010313 MoaE homodimer interface [polypeptide binding]; other site 349520010314 MoaD interaction [polypeptide binding]; other site 349520010315 active site residues [active] 349520010316 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 349520010317 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 349520010318 ATP binding site [chemical binding]; other site 349520010319 substrate interface [chemical binding]; other site 349520010320 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 349520010321 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 349520010322 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 349520010323 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349520010324 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 349520010325 active site 349520010326 phosphorylation site [posttranslational modification] 349520010327 intermolecular recognition site; other site 349520010328 dimerization interface [polypeptide binding]; other site 349520010329 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 349520010330 DNA binding residues [nucleotide binding] 349520010331 dimerization interface [polypeptide binding]; other site 349520010332 PAS domain S-box; Region: sensory_box; TIGR00229 349520010333 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 349520010334 Histidine kinase; Region: HisKA_3; pfam07730 349520010335 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 349520010336 ATP binding site [chemical binding]; other site 349520010337 Mg2+ binding site [ion binding]; other site 349520010338 G-X-G motif; other site 349520010339 GAF domain; Region: GAF_3; pfam13492 349520010340 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 349520010341 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 349520010342 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 349520010343 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 349520010344 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 349520010345 [4Fe-4S] binding site [ion binding]; other site 349520010346 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 349520010347 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 349520010348 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 349520010349 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 349520010350 molybdopterin cofactor binding site; other site 349520010351 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 349520010352 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520010353 putative PBP binding loops; other site 349520010354 ABC-ATPase subunit interface; other site 349520010355 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 349520010356 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 349520010357 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 349520010358 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 349520010359 Hemerythrin-like domain; Region: Hr-like; cd12108 349520010360 Fe binding site [ion binding]; other site 349520010361 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 349520010362 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349520010363 radical SAM protein, BA_1875 family; Region: sam_11; TIGR04053 349520010364 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 349520010365 FeS/SAM binding site; other site 349520010366 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 349520010367 YwiC-like protein; Region: YwiC; pfam14256 349520010368 Domain of unknown function (DUF1963); Region: DUF1963; pfam09234 349520010369 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 349520010370 FtsZ protein binding site [polypeptide binding]; other site 349520010371 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 349520010372 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 349520010373 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 349520010374 transaminase; Reviewed; Region: PRK08068 349520010375 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 349520010376 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520010377 homodimer interface [polypeptide binding]; other site 349520010378 catalytic residue [active] 349520010379 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 349520010380 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 349520010381 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520010382 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520010383 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 349520010384 metal ion-dependent adhesion site (MIDAS); other site 349520010385 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 349520010386 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 349520010387 DNA binding site [nucleotide binding] 349520010388 active site 349520010389 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 349520010390 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 349520010391 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520010392 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520010393 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 349520010394 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 349520010395 tetramer interface [polypeptide binding]; other site 349520010396 active site 349520010397 Mg2+/Mn2+ binding site [ion binding]; other site 349520010398 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 349520010399 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520010400 putative substrate translocation pore; other site 349520010401 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 349520010402 putative DNA binding site [nucleotide binding]; other site 349520010403 dimerization interface [polypeptide binding]; other site 349520010404 putative Zn2+ binding site [ion binding]; other site 349520010405 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 349520010406 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520010407 NAD(P) binding site [chemical binding]; other site 349520010408 active site 349520010409 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 349520010410 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 349520010411 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520010412 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520010413 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520010414 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520010415 DNA binding site [nucleotide binding] 349520010416 domain linker motif; other site 349520010417 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 349520010418 ligand binding site [chemical binding]; other site 349520010419 dimerization interface [polypeptide binding]; other site 349520010420 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 349520010421 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 349520010422 putative NAD(P) binding site [chemical binding]; other site 349520010423 catalytic Zn binding site [ion binding]; other site 349520010424 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 349520010425 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 349520010426 putative ligand binding residues [chemical binding]; other site 349520010427 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 349520010428 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520010429 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520010430 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 349520010431 Spore germination protein; Region: Spore_permease; cl17796 349520010432 VanZ like family; Region: VanZ; pfam04892 349520010433 RDD family; Region: RDD; pfam06271 349520010434 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 349520010435 dimer interface [polypeptide binding]; other site 349520010436 FMN binding site [chemical binding]; other site 349520010437 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 349520010438 active site 1 [active] 349520010439 dimer interface [polypeptide binding]; other site 349520010440 hexamer interface [polypeptide binding]; other site 349520010441 active site 2 [active] 349520010442 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520010443 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 349520010444 dimerization interface [polypeptide binding]; other site 349520010445 putative DNA binding site [nucleotide binding]; other site 349520010446 putative Zn2+ binding site [ion binding]; other site 349520010447 glutamate dehydrogenase; Provisional; Region: PRK09414 349520010448 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 349520010449 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 349520010450 NAD(P) binding site [chemical binding]; other site 349520010451 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 349520010452 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 349520010453 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520010454 catalytic residue [active] 349520010455 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 349520010456 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 349520010457 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 349520010458 DGC domain; Region: DGC; pfam08859 349520010459 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 349520010460 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349520010461 catalytic residue [active] 349520010462 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520010463 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_8; cd07246 349520010464 putative dimer interface [polypeptide binding]; other site 349520010465 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349520010466 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 349520010467 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 349520010468 conserved cys residue [active] 349520010469 Predicted transcriptional regulator [Transcription]; Region: COG2378 349520010470 HTH domain; Region: HTH_11; pfam08279 349520010471 WYL domain; Region: WYL; pfam13280 349520010472 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 349520010473 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520010474 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520010475 dimer interface [polypeptide binding]; other site 349520010476 conserved gate region; other site 349520010477 putative PBP binding loops; other site 349520010478 ABC-ATPase subunit interface; other site 349520010479 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 349520010480 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520010481 dimer interface [polypeptide binding]; other site 349520010482 conserved gate region; other site 349520010483 putative PBP binding loops; other site 349520010484 ABC-ATPase subunit interface; other site 349520010485 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520010486 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520010487 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 349520010488 Response regulator receiver domain; Region: Response_reg; pfam00072 349520010489 active site 349520010490 phosphorylation site [posttranslational modification] 349520010491 intermolecular recognition site; other site 349520010492 dimerization interface [polypeptide binding]; other site 349520010493 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520010494 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520010495 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520010496 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 349520010497 dimerization interface [polypeptide binding]; other site 349520010498 Histidine kinase; Region: His_kinase; pfam06580 349520010499 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 349520010500 ATP binding site [chemical binding]; other site 349520010501 Mg2+ binding site [ion binding]; other site 349520010502 G-X-G motif; other site 349520010503 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349520010504 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349520010505 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 349520010506 HEAT repeats; Region: HEAT_2; pfam13646 349520010507 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 349520010508 Cupin domain; Region: Cupin_2; cl17218 349520010509 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 349520010510 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 349520010511 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 349520010512 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 349520010513 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520010514 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520010515 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 349520010516 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 349520010517 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 349520010518 Pectate lyase [Carbohydrate transport and metabolism]; Region: PelB; COG3866 349520010519 Amb_all domain; Region: Amb_all; smart00656 349520010520 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 349520010521 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349520010522 Walker A/P-loop; other site 349520010523 ATP binding site [chemical binding]; other site 349520010524 Q-loop/lid; other site 349520010525 ABC transporter signature motif; other site 349520010526 Walker B; other site 349520010527 D-loop; other site 349520010528 H-loop/switch region; other site 349520010529 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349520010530 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520010531 HAMP domain; Region: HAMP; pfam00672 349520010532 dimerization interface [polypeptide binding]; other site 349520010533 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 349520010534 dimer interface [polypeptide binding]; other site 349520010535 phosphorylation site [posttranslational modification] 349520010536 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 349520010537 ATP binding site [chemical binding]; other site 349520010538 Mg2+ binding site [ion binding]; other site 349520010539 G-X-G motif; other site 349520010540 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520010541 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 349520010542 active site 349520010543 phosphorylation site [posttranslational modification] 349520010544 intermolecular recognition site; other site 349520010545 dimerization interface [polypeptide binding]; other site 349520010546 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 349520010547 DNA binding site [nucleotide binding] 349520010548 H-type lectin domain; Region: H_lectin; pfam09458 349520010549 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 349520010550 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 349520010551 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 349520010552 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 349520010553 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 349520010554 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 349520010555 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 349520010556 Peptidase S8 family domain in BacillopeptidaseF-like proteins; Region: Peptidases_S8_BacillopeptidaseF-like; cd07481 349520010557 active site 349520010558 catalytic triad [active] 349520010559 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 349520010560 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 349520010561 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 349520010562 Cna protein B-type domain; Region: Cna_B_2; pfam13715 349520010563 Cna protein B-type domain; Region: Cna_B_2; pfam13715 349520010564 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 349520010565 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 349520010566 Peptidase S8 family domain in BacillopeptidaseF-like proteins; Region: Peptidases_S8_BacillopeptidaseF-like; cd07481 349520010567 active site 349520010568 catalytic triad [active] 349520010569 putative transporter; Provisional; Region: PRK11660 349520010570 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 349520010571 Sulfate transporter family; Region: Sulfate_transp; pfam00916 349520010572 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 349520010573 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 349520010574 dimerization interface [polypeptide binding]; other site 349520010575 putative DNA binding site [nucleotide binding]; other site 349520010576 putative Zn2+ binding site [ion binding]; other site 349520010577 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 349520010578 Uncharacterized protein family (UPF0262); Region: UPF0262; cl11489 349520010579 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 349520010580 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 349520010581 Walker A motif; other site 349520010582 ATP binding site [chemical binding]; other site 349520010583 Walker B motif; other site 349520010584 arginine finger; other site 349520010585 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 349520010586 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520010587 putative substrate translocation pore; other site 349520010588 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349520010589 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 349520010590 Walker A/P-loop; other site 349520010591 ATP binding site [chemical binding]; other site 349520010592 Q-loop/lid; other site 349520010593 ABC transporter signature motif; other site 349520010594 Walker B; other site 349520010595 D-loop; other site 349520010596 H-loop/switch region; other site 349520010597 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349520010598 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520010599 dimer interface [polypeptide binding]; other site 349520010600 conserved gate region; other site 349520010601 putative PBP binding loops; other site 349520010602 ABC-ATPase subunit interface; other site 349520010603 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349520010604 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 349520010605 substrate binding pocket [chemical binding]; other site 349520010606 membrane-bound complex binding site; other site 349520010607 hinge residues; other site 349520010608 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 349520010609 H+ Antiporter protein; Region: 2A0121; TIGR00900 349520010610 putative substrate translocation pore; other site 349520010611 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 349520010612 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 349520010613 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 349520010614 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 349520010615 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 349520010616 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 349520010617 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 349520010618 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 349520010619 Cellulose binding domain; Region: CBM_3; pfam00942 349520010620 dihydroxyacetone kinase; Provisional; Region: PRK14479 349520010621 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 349520010622 DAK2 domain; Region: Dak2; pfam02734 349520010623 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 349520010624 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 349520010625 dimer interface [polypeptide binding]; other site 349520010626 active site 349520010627 metal binding site [ion binding]; metal-binding site 349520010628 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 349520010629 Sensory domain found in PocR; Region: PocR; pfam10114 349520010630 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 349520010631 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520010632 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520010633 Protein of unknown function (DUF2167); Region: DUF2167; cl01938 349520010634 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349520010635 Helix-turn-helix domain; Region: HTH_28; pfam13518 349520010636 putative transposase OrfB; Reviewed; Region: PHA02517 349520010637 HTH-like domain; Region: HTH_21; pfam13276 349520010638 Integrase core domain; Region: rve; pfam00665 349520010639 Integrase core domain; Region: rve_2; pfam13333 349520010640 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 349520010641 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 349520010642 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 349520010643 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; pfam12639 349520010644 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 349520010645 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 349520010646 RDD family; Region: RDD; pfam06271 349520010647 RDD family; Region: RDD; pfam06271 349520010648 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 349520010649 nucleotide binding site [chemical binding]; other site 349520010650 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 349520010651 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 349520010652 active site 349520010653 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 349520010654 phosphopeptide binding site; other site 349520010655 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 349520010656 phosphopeptide binding site; other site 349520010657 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 349520010658 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 349520010659 HSP70 interaction site [polypeptide binding]; other site 349520010660 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 349520010661 metal ion-dependent adhesion site (MIDAS); other site 349520010662 Catalytic domain of Protein Kinases; Region: PKc; cd00180 349520010663 active site 349520010664 ATP binding site [chemical binding]; other site 349520010665 substrate binding site [chemical binding]; other site 349520010666 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 349520010667 activation loop (A-loop); other site 349520010668 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 349520010669 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 349520010670 putative substrate translocation pore; other site 349520010671 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 349520010672 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 349520010673 active site 349520010674 phosphorylation site [posttranslational modification] 349520010675 intermolecular recognition site; other site 349520010676 dimerization interface [polypeptide binding]; other site 349520010677 LytTr DNA-binding domain; Region: LytTR; smart00850 349520010678 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 349520010679 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 349520010680 GAF domain; Region: GAF; cl17456 349520010681 Histidine kinase; Region: His_kinase; pfam06580 349520010682 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 349520010683 ATP binding site [chemical binding]; other site 349520010684 Mg2+ binding site [ion binding]; other site 349520010685 G-X-G motif; other site 349520010686 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cl00700 349520010687 catalytic triad [active] 349520010688 dimer interface [polypeptide binding]; other site 349520010689 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 349520010690 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 349520010691 5S rRNA interface [nucleotide binding]; other site 349520010692 CTC domain interface [polypeptide binding]; other site 349520010693 L16 interface [polypeptide binding]; other site 349520010694 pullulanase, type I; Region: pulA_typeI; TIGR02104 349520010695 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 349520010696 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 349520010697 Ca binding site [ion binding]; other site 349520010698 active site 349520010699 catalytic site [active] 349520010700 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 349520010701 carbohydrate binding site [chemical binding]; other site 349520010702 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 349520010703 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520010704 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520010705 Walker A/P-loop; other site 349520010706 ATP binding site [chemical binding]; other site 349520010707 Q-loop/lid; other site 349520010708 ABC transporter signature motif; other site 349520010709 Walker B; other site 349520010710 D-loop; other site 349520010711 H-loop/switch region; other site 349520010712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 349520010713 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 349520010714 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520010715 Walker A/P-loop; other site 349520010716 ATP binding site [chemical binding]; other site 349520010717 Q-loop/lid; other site 349520010718 ABC transporter signature motif; other site 349520010719 Walker B; other site 349520010720 D-loop; other site 349520010721 H-loop/switch region; other site 349520010722 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 349520010723 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 349520010724 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 349520010725 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 349520010726 active site 349520010727 phosphorylation site [posttranslational modification] 349520010728 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 349520010729 HTH domain; Region: HTH_11; pfam08279 349520010730 PRD domain; Region: PRD; pfam00874 349520010731 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 349520010732 active site 349520010733 P-loop; other site 349520010734 phosphorylation site [posttranslational modification] 349520010735 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 349520010736 active site 349520010737 phosphorylation site [posttranslational modification] 349520010738 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 349520010739 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 349520010740 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 349520010741 active site 349520010742 P-loop; other site 349520010743 phosphorylation site [posttranslational modification] 349520010744 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 349520010745 lipoyl attachment site [posttranslational modification]; other site 349520010746 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 349520010747 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 349520010748 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 349520010749 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 349520010750 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 349520010751 tetramer interface [polypeptide binding]; other site 349520010752 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520010753 catalytic residue [active] 349520010754 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 349520010755 tetramer interface [polypeptide binding]; other site 349520010756 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520010757 catalytic residue [active] 349520010758 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 349520010759 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 349520010760 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 349520010761 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 349520010762 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 349520010763 dimerization domain swap beta strand [polypeptide binding]; other site 349520010764 regulatory protein interface [polypeptide binding]; other site 349520010765 active site 349520010766 regulatory phosphorylation site [posttranslational modification]; other site 349520010767 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 349520010768 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 349520010769 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 349520010770 active site turn [active] 349520010771 phosphorylation site [posttranslational modification] 349520010772 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 349520010773 HPr interaction site; other site 349520010774 glycerol kinase (GK) interaction site [polypeptide binding]; other site 349520010775 active site 349520010776 phosphorylation site [posttranslational modification] 349520010777 transcriptional antiterminator BglG; Provisional; Region: PRK09772 349520010778 CAT RNA binding domain; Region: CAT_RBD; pfam03123 349520010779 PRD domain; Region: PRD; pfam00874 349520010780 PRD domain; Region: PRD; pfam00874 349520010781 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 349520010782 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 349520010783 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 349520010784 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 349520010785 dimer interface [polypeptide binding]; other site 349520010786 active site 349520010787 metal binding site [ion binding]; metal-binding site 349520010788 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 349520010789 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 349520010790 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 349520010791 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 349520010792 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 349520010793 NAD binding site [chemical binding]; other site 349520010794 homodimer interface [polypeptide binding]; other site 349520010795 active site 349520010796 substrate binding site [chemical binding]; other site 349520010797 galactokinase; Provisional; Region: PRK05322 349520010798 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 349520010799 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 349520010800 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 349520010801 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 349520010802 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520010803 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520010804 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520010805 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 349520010806 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349520010807 active site 349520010808 catalytic tetrad [active] 349520010809 NAD-dependent deacetylase; Provisional; Region: PRK00481 349520010810 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 349520010811 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 349520010812 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 349520010813 motif II; other site 349520010814 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 349520010815 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 349520010816 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 349520010817 General stress protein [General function prediction only]; Region: GsiB; COG3729 349520010818 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 349520010819 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 349520010820 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 349520010821 NodB motif; other site 349520010822 putative active site [active] 349520010823 putative catalytic site [active] 349520010824 putative Zn binding site [ion binding]; other site 349520010825 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 349520010826 Domain of unknown function DUF20; Region: UPF0118; pfam01594 349520010827 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 349520010828 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 349520010829 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 349520010830 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 349520010831 dimerization interface [polypeptide binding]; other site 349520010832 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349520010833 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520010834 dimer interface [polypeptide binding]; other site 349520010835 putative CheW interface [polypeptide binding]; other site 349520010836 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 349520010837 Peptidase family U32; Region: Peptidase_U32; pfam01136 349520010838 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 349520010839 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 349520010840 Peptidase family U32; Region: Peptidase_U32; pfam01136 349520010841 YceG-like family; Region: YceG; pfam02618 349520010842 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 349520010843 dimerization interface [polypeptide binding]; other site 349520010844 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 349520010845 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 349520010846 hypothetical protein; Provisional; Region: PRK05473 349520010847 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 349520010848 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 349520010849 motif 1; other site 349520010850 active site 349520010851 motif 2; other site 349520010852 motif 3; other site 349520010853 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 349520010854 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 349520010855 Domain of unknown function DUF20; Region: UPF0118; pfam01594 349520010856 Cache domain; Region: Cache_1; pfam02743 349520010857 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 349520010858 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 349520010859 dimerization interface [polypeptide binding]; other site 349520010860 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520010861 dimer interface [polypeptide binding]; other site 349520010862 putative CheW interface [polypeptide binding]; other site 349520010863 PRC-barrel domain; Region: PRC; pfam05239 349520010864 PRC-barrel domain; Region: PRC; pfam05239 349520010865 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 349520010866 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 349520010867 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349520010868 catalytic residue [active] 349520010869 Predicted transcriptional regulator [Transcription]; Region: COG1959 349520010870 Transcriptional regulator; Region: Rrf2; pfam02082 349520010871 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 349520010872 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 349520010873 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 349520010874 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 349520010875 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 349520010876 recombination factor protein RarA; Reviewed; Region: PRK13342 349520010877 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 349520010878 Walker A motif; other site 349520010879 ATP binding site [chemical binding]; other site 349520010880 Walker B motif; other site 349520010881 arginine finger; other site 349520010882 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 349520010883 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 349520010884 Part of AAA domain; Region: AAA_19; pfam13245 349520010885 Family description; Region: UvrD_C_2; pfam13538 349520010886 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 349520010887 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; pfam03802 349520010888 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 349520010889 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349520010890 active site 349520010891 nucleotide binding site [chemical binding]; other site 349520010892 HIGH motif; other site 349520010893 KMSKS motif; other site 349520010894 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 349520010895 Malic enzyme, N-terminal domain; Region: malic; pfam00390 349520010896 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 349520010897 putative NAD(P) binding site [chemical binding]; other site 349520010898 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 349520010899 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 349520010900 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 349520010901 citrate lyase subunit gamma; Provisional; Region: PRK13253 349520010902 Cache domain; Region: Cache_1; pfam02743 349520010903 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520010904 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 349520010905 dimer interface [polypeptide binding]; other site 349520010906 phosphorylation site [posttranslational modification] 349520010907 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 349520010908 ATP binding site [chemical binding]; other site 349520010909 Mg2+ binding site [ion binding]; other site 349520010910 G-X-G motif; other site 349520010911 Response regulator receiver domain; Region: Response_reg; pfam00072 349520010912 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 349520010913 active site 349520010914 phosphorylation site [posttranslational modification] 349520010915 intermolecular recognition site; other site 349520010916 dimerization interface [polypeptide binding]; other site 349520010917 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 349520010918 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520010919 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 349520010920 active site 349520010921 phosphorylation site [posttranslational modification] 349520010922 intermolecular recognition site; other site 349520010923 dimerization interface [polypeptide binding]; other site 349520010924 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 349520010925 DNA binding site [nucleotide binding] 349520010926 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349520010927 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520010928 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520010929 Walker A/P-loop; other site 349520010930 ATP binding site [chemical binding]; other site 349520010931 Q-loop/lid; other site 349520010932 ABC transporter signature motif; other site 349520010933 Walker B; other site 349520010934 D-loop; other site 349520010935 H-loop/switch region; other site 349520010936 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 349520010937 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 349520010938 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 349520010939 putative ATP binding site [chemical binding]; other site 349520010940 putative substrate interface [chemical binding]; other site 349520010941 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 349520010942 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 349520010943 dimer interface [polypeptide binding]; other site 349520010944 anticodon binding site; other site 349520010945 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 349520010946 homodimer interface [polypeptide binding]; other site 349520010947 motif 1; other site 349520010948 active site 349520010949 motif 2; other site 349520010950 GAD domain; Region: GAD; pfam02938 349520010951 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 349520010952 active site 349520010953 motif 3; other site 349520010954 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 349520010955 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 349520010956 dimer interface [polypeptide binding]; other site 349520010957 motif 1; other site 349520010958 active site 349520010959 motif 2; other site 349520010960 motif 3; other site 349520010961 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 349520010962 anticodon binding site; other site 349520010963 intracellular protease, PfpI family; Region: PfpI; TIGR01382 349520010964 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 349520010965 proposed catalytic triad [active] 349520010966 conserved cys residue [active] 349520010967 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 349520010968 putative active site [active] 349520010969 dimerization interface [polypeptide binding]; other site 349520010970 putative tRNAtyr binding site [nucleotide binding]; other site 349520010971 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 349520010972 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 349520010973 Zn2+ binding site [ion binding]; other site 349520010974 Mg2+ binding site [ion binding]; other site 349520010975 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 349520010976 synthetase active site [active] 349520010977 NTP binding site [chemical binding]; other site 349520010978 metal binding site [ion binding]; metal-binding site 349520010979 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 349520010980 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 349520010981 uracil transporter; Provisional; Region: PRK10720 349520010982 Cache domain; Region: Cache_1; pfam02743 349520010983 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 349520010984 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 349520010985 dimerization interface [polypeptide binding]; other site 349520010986 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520010987 dimer interface [polypeptide binding]; other site 349520010988 putative CheW interface [polypeptide binding]; other site 349520010989 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349520010990 active site 349520010991 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 349520010992 DHH family; Region: DHH; pfam01368 349520010993 DHHA1 domain; Region: DHHA1; pfam02272 349520010994 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 349520010995 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 349520010996 Cation efflux family; Region: Cation_efflux; pfam01545 349520010997 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 349520010998 Protein export membrane protein; Region: SecD_SecF; pfam02355 349520010999 protein-export membrane protein SecD; Region: secD; TIGR01129 349520011000 Class I aldolases; Region: Aldolase_Class_I; cl17187 349520011001 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 349520011002 Post-transcriptional regulator; Region: Post_transc_reg; pfam13797 349520011003 stage V sporulation protein B; Region: spore_V_B; TIGR02900 349520011004 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 349520011005 Predicted membrane protein [Function unknown]; Region: COG2323 349520011006 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 349520011007 Preprotein translocase subunit; Region: YajC; pfam02699 349520011008 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 349520011009 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 349520011010 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 349520011011 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 349520011012 Sporulation related domain; Region: SPOR; cl10051 349520011013 Stage II sporulation protein; Region: SpoIID; pfam08486 349520011014 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 349520011015 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 349520011016 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 349520011017 Walker A motif; other site 349520011018 ATP binding site [chemical binding]; other site 349520011019 Walker B motif; other site 349520011020 arginine finger; other site 349520011021 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 349520011022 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 349520011023 RuvA N terminal domain; Region: RuvA_N; pfam01330 349520011024 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 349520011025 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 349520011026 active site 349520011027 putative DNA-binding cleft [nucleotide binding]; other site 349520011028 dimer interface [polypeptide binding]; other site 349520011029 BofC C-terminal domain; Region: BofC_C; pfam08955 349520011030 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349520011031 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 349520011032 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349520011033 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 349520011034 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 349520011035 homodimer interface [polypeptide binding]; other site 349520011036 substrate-cofactor binding pocket; other site 349520011037 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520011038 catalytic residue [active] 349520011039 prephenate dehydratase; Provisional; Region: PRK11898 349520011040 Prephenate dehydratase; Region: PDT; pfam00800 349520011041 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 349520011042 putative L-Phe binding site [chemical binding]; other site 349520011043 homoserine kinase; Provisional; Region: PRK01212 349520011044 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 349520011045 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 349520011046 homoserine dehydrogenase; Provisional; Region: PRK06349 349520011047 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 349520011048 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 349520011049 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 349520011050 hypothetical protein; Provisional; Region: PRK04435 349520011051 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 349520011052 GTPase CgtA; Reviewed; Region: obgE; PRK12297 349520011053 GTP1/OBG; Region: GTP1_OBG; pfam01018 349520011054 Obg GTPase; Region: Obg; cd01898 349520011055 G1 box; other site 349520011056 GTP/Mg2+ binding site [chemical binding]; other site 349520011057 Switch I region; other site 349520011058 G2 box; other site 349520011059 G3 box; other site 349520011060 Switch II region; other site 349520011061 G4 box; other site 349520011062 G5 box; other site 349520011063 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 349520011064 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 349520011065 Protein of unknown function (DUF464); Region: DUF464; pfam04327 349520011066 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 349520011067 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 349520011068 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 349520011069 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 349520011070 homodimer interface [polypeptide binding]; other site 349520011071 oligonucleotide binding site [chemical binding]; other site 349520011072 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 349520011073 Peptidase family M50; Region: Peptidase_M50; pfam02163 349520011074 active site 349520011075 putative substrate binding region [chemical binding]; other site 349520011076 Peptidase family M23; Region: Peptidase_M23; pfam01551 349520011077 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 349520011078 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 349520011079 Switch I; other site 349520011080 Switch II; other site 349520011081 septum formation inhibitor; Reviewed; Region: minC; PRK00513 349520011082 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 349520011083 rod shape-determining protein MreD; Region: MreD; cl01087 349520011084 rod shape-determining protein MreC; Region: mreC; TIGR00219 349520011085 rod shape-determining protein MreC; Region: MreC; pfam04085 349520011086 rod shape-determining protein MreB; Provisional; Region: PRK13927 349520011087 MreB and similar proteins; Region: MreB_like; cd10225 349520011088 nucleotide binding site [chemical binding]; other site 349520011089 Mg binding site [ion binding]; other site 349520011090 putative protofilament interaction site [polypeptide binding]; other site 349520011091 RodZ interaction site [polypeptide binding]; other site 349520011092 hypothetical protein; Reviewed; Region: PRK00024 349520011093 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 349520011094 MPN+ (JAMM) motif; other site 349520011095 Zinc-binding site [ion binding]; other site 349520011096 Maf-like protein; Reviewed; Region: PRK00078 349520011097 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 349520011098 active site 349520011099 dimer interface [polypeptide binding]; other site 349520011100 Sporulation related domain; Region: SPOR; pfam05036 349520011101 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 349520011102 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 349520011103 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349520011104 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349520011105 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 349520011106 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349520011107 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349520011108 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 349520011109 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349520011110 active site 349520011111 HIGH motif; other site 349520011112 nucleotide binding site [chemical binding]; other site 349520011113 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 349520011114 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 349520011115 active site 349520011116 KMSKS motif; other site 349520011117 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 349520011118 tRNA binding surface [nucleotide binding]; other site 349520011119 anticodon binding site; other site 349520011120 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 349520011121 stage VI sporulation protein D; Region: spore_VI_D; TIGR02907 349520011122 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349520011123 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 349520011124 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 349520011125 active site 349520011126 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 349520011127 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 349520011128 inhibitor-cofactor binding pocket; inhibition site 349520011129 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520011130 catalytic residue [active] 349520011131 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 349520011132 dimer interface [polypeptide binding]; other site 349520011133 active site 349520011134 Schiff base residues; other site 349520011135 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 349520011136 active site 349520011137 SAM binding site [chemical binding]; other site 349520011138 homodimer interface [polypeptide binding]; other site 349520011139 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 349520011140 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 349520011141 active site 349520011142 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 349520011143 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 349520011144 domain interfaces; other site 349520011145 active site 349520011146 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 349520011147 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 349520011148 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 349520011149 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 349520011150 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 349520011151 tRNA; other site 349520011152 putative tRNA binding site [nucleotide binding]; other site 349520011153 putative NADP binding site [chemical binding]; other site 349520011154 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 349520011155 S-adenosylmethionine decarboxylase proenzyme; Validated; Region: PRK01706 349520011156 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 349520011157 G1 box; other site 349520011158 GTP/Mg2+ binding site [chemical binding]; other site 349520011159 Switch I region; other site 349520011160 G2 box; other site 349520011161 G3 box; other site 349520011162 Switch II region; other site 349520011163 G4 box; other site 349520011164 G5 box; other site 349520011165 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 349520011166 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 349520011167 Walker A motif; other site 349520011168 ATP binding site [chemical binding]; other site 349520011169 Walker B motif; other site 349520011170 arginine finger; other site 349520011171 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 349520011172 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 349520011173 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 349520011174 Walker A motif; other site 349520011175 ATP binding site [chemical binding]; other site 349520011176 Walker B motif; other site 349520011177 arginine finger; other site 349520011178 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 349520011179 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 349520011180 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 349520011181 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 349520011182 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 349520011183 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 349520011184 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 349520011185 Walker A motif; other site 349520011186 ATP binding site [chemical binding]; other site 349520011187 Walker B motif; other site 349520011188 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 349520011189 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 349520011190 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 349520011191 oligomer interface [polypeptide binding]; other site 349520011192 active site residues [active] 349520011193 trigger factor; Provisional; Region: tig; PRK01490 349520011194 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 349520011195 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 349520011196 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 349520011197 active site 349520011198 putative catalytic site [active] 349520011199 DNA binding site [nucleotide binding] 349520011200 putative phosphate binding site [ion binding]; other site 349520011201 metal binding site A [ion binding]; metal-binding site 349520011202 AP binding site [nucleotide binding]; other site 349520011203 metal binding site B [ion binding]; metal-binding site 349520011204 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 349520011205 beta-galactosidase; Region: BGL; TIGR03356 349520011206 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520011207 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520011208 dimer interface [polypeptide binding]; other site 349520011209 conserved gate region; other site 349520011210 putative PBP binding loops; other site 349520011211 ABC-ATPase subunit interface; other site 349520011212 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520011213 dimer interface [polypeptide binding]; other site 349520011214 conserved gate region; other site 349520011215 putative PBP binding loops; other site 349520011216 ABC-ATPase subunit interface; other site 349520011217 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520011218 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 349520011219 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520011220 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520011221 DNA binding site [nucleotide binding] 349520011222 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 349520011223 dimerization interface [polypeptide binding]; other site 349520011224 ligand binding site [chemical binding]; other site 349520011225 glycerol kinase; Provisional; Region: glpK; PRK00047 349520011226 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 349520011227 N- and C-terminal domain interface [polypeptide binding]; other site 349520011228 active site 349520011229 MgATP binding site [chemical binding]; other site 349520011230 catalytic site [active] 349520011231 metal binding site [ion binding]; metal-binding site 349520011232 glycerol binding site [chemical binding]; other site 349520011233 homotetramer interface [polypeptide binding]; other site 349520011234 homodimer interface [polypeptide binding]; other site 349520011235 FBP binding site [chemical binding]; other site 349520011236 protein IIAGlc interface [polypeptide binding]; other site 349520011237 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 349520011238 amphipathic channel; other site 349520011239 Asn-Pro-Ala signature motifs; other site 349520011240 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 349520011241 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 349520011242 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 349520011243 active site turn [active] 349520011244 phosphorylation site [posttranslational modification] 349520011245 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520011246 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520011247 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520011248 dimer interface [polypeptide binding]; other site 349520011249 conserved gate region; other site 349520011250 putative PBP binding loops; other site 349520011251 ABC-ATPase subunit interface; other site 349520011252 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520011253 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520011254 dimer interface [polypeptide binding]; other site 349520011255 conserved gate region; other site 349520011256 putative PBP binding loops; other site 349520011257 ABC-ATPase subunit interface; other site 349520011258 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 349520011259 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 349520011260 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 349520011261 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 349520011262 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 349520011263 DNA binding residues [nucleotide binding] 349520011264 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 349520011265 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 349520011266 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 349520011267 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 349520011268 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 349520011269 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 349520011270 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520011271 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520011272 DNA binding site [nucleotide binding] 349520011273 domain linker motif; other site 349520011274 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 349520011275 CAT RNA binding domain; Region: CAT_RBD; smart01061 349520011276 transcriptional antiterminator BglG; Provisional; Region: PRK09772 349520011277 PRD domain; Region: PRD; pfam00874 349520011278 PRD domain; Region: PRD; pfam00874 349520011279 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 349520011280 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 349520011281 active site turn [active] 349520011282 phosphorylation site [posttranslational modification] 349520011283 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 349520011284 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 349520011285 HPr interaction site; other site 349520011286 glycerol kinase (GK) interaction site [polypeptide binding]; other site 349520011287 active site 349520011288 phosphorylation site [posttranslational modification] 349520011289 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 349520011290 catalytic residues [active] 349520011291 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 349520011292 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 349520011293 active site 349520011294 Cupin domain; Region: Cupin_2; cl17218 349520011295 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520011296 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 349520011297 active site 349520011298 phosphorylation site [posttranslational modification] 349520011299 intermolecular recognition site; other site 349520011300 dimerization interface [polypeptide binding]; other site 349520011301 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 349520011302 DNA binding site [nucleotide binding] 349520011303 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 349520011304 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520011305 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 349520011306 ATP binding site [chemical binding]; other site 349520011307 Mg2+ binding site [ion binding]; other site 349520011308 G-X-G motif; other site 349520011309 Response regulator receiver domain; Region: Response_reg; pfam00072 349520011310 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 349520011311 active site 349520011312 phosphorylation site [posttranslational modification] 349520011313 intermolecular recognition site; other site 349520011314 dimerization interface [polypeptide binding]; other site 349520011315 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 349520011316 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 349520011317 active site 349520011318 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 349520011319 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349520011320 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 349520011321 active site 349520011322 malate dehydrogenase; Provisional; Region: PRK13529 349520011323 Malic enzyme, N-terminal domain; Region: malic; pfam00390 349520011324 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 349520011325 NAD(P) binding site [chemical binding]; other site 349520011326 Putative transcription activator [Transcription]; Region: TenA; COG0819 349520011327 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 349520011328 substrate binding site [chemical binding]; other site 349520011329 multimerization interface [polypeptide binding]; other site 349520011330 ATP binding site [chemical binding]; other site 349520011331 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 349520011332 dimer interface [polypeptide binding]; other site 349520011333 substrate binding site [chemical binding]; other site 349520011334 ATP binding site [chemical binding]; other site 349520011335 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 349520011336 thiamine phosphate binding site [chemical binding]; other site 349520011337 active site 349520011338 pyrophosphate binding site [ion binding]; other site 349520011339 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 349520011340 non-specific DNA binding site [nucleotide binding]; other site 349520011341 salt bridge; other site 349520011342 sequence-specific DNA binding site [nucleotide binding]; other site 349520011343 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520011344 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520011345 DNA binding site [nucleotide binding] 349520011346 domain linker motif; other site 349520011347 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 349520011348 putative dimerization interface [polypeptide binding]; other site 349520011349 putative ligand binding site [chemical binding]; other site 349520011350 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 349520011351 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 349520011352 NAD binding site [chemical binding]; other site 349520011353 sugar binding site [chemical binding]; other site 349520011354 divalent metal binding site [ion binding]; other site 349520011355 tetramer (dimer of dimers) interface [polypeptide binding]; other site 349520011356 dimer interface [polypeptide binding]; other site 349520011357 Tic20-like protein; Region: Tic20; pfam09685 349520011358 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 349520011359 active site 349520011360 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 349520011361 dimer interface [polypeptide binding]; other site 349520011362 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 349520011363 Ligand Binding Site [chemical binding]; other site 349520011364 Molecular Tunnel; other site 349520011365 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 349520011366 active site 349520011367 dimerization interface [polypeptide binding]; other site 349520011368 ribonuclease PH; Reviewed; Region: rph; PRK00173 349520011369 Ribonuclease PH; Region: RNase_PH_bact; cd11362 349520011370 hexamer interface [polypeptide binding]; other site 349520011371 active site 349520011372 Spore germination protein [General function prediction only]; Region: COG5401 349520011373 Sporulation and spore germination; Region: Germane; pfam10646 349520011374 Sporulation and spore germination; Region: Germane; pfam10646 349520011375 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 349520011376 tetramer interfaces [polypeptide binding]; other site 349520011377 binuclear metal-binding site [ion binding]; other site 349520011378 putative acetyltransferase; Provisional; Region: PRK03624 349520011379 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520011380 Coenzyme A binding pocket [chemical binding]; other site 349520011381 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 349520011382 classical (c) SDRs; Region: SDR_c; cd05233 349520011383 NAD(P) binding site [chemical binding]; other site 349520011384 active site 349520011385 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520011386 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520011387 WHG domain; Region: WHG; pfam13305 349520011388 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 349520011389 NADH(P)-binding; Region: NAD_binding_10; pfam13460 349520011390 NAD binding site [chemical binding]; other site 349520011391 putative active site [active] 349520011392 substrate binding site [chemical binding]; other site 349520011393 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 349520011394 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 349520011395 S-adenosylmethionine binding site [chemical binding]; other site 349520011396 Protein of unknown function DUF72; Region: DUF72; pfam01904 349520011397 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 349520011398 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 349520011399 putative metal binding site; other site 349520011400 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 349520011401 binding surface 349520011402 TPR motif; other site 349520011403 Methyltransferase domain; Region: Methyltransf_23; pfam13489 349520011404 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 349520011405 S-adenosylmethionine binding site [chemical binding]; other site 349520011406 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 349520011407 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520011408 NAD(P) binding site [chemical binding]; other site 349520011409 active site 349520011410 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 349520011411 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 349520011412 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 349520011413 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 349520011414 NAD(P) binding site [chemical binding]; other site 349520011415 homodimer interface [polypeptide binding]; other site 349520011416 substrate binding site [chemical binding]; other site 349520011417 active site 349520011418 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 349520011419 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 349520011420 active site 349520011421 catalytic triad [active] 349520011422 oxyanion hole [active] 349520011423 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 349520011424 dimerization interface [polypeptide binding]; other site 349520011425 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349520011426 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520011427 dimer interface [polypeptide binding]; other site 349520011428 putative CheW interface [polypeptide binding]; other site 349520011429 Putative motility protein; Region: YjfB_motility; pfam14070 349520011430 hypothetical protein; Provisional; Region: PRK08201 349520011431 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 349520011432 metal binding site [ion binding]; metal-binding site 349520011433 putative dimer interface [polypeptide binding]; other site 349520011434 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349520011435 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 349520011436 DNA binding residues [nucleotide binding] 349520011437 dimerization interface [polypeptide binding]; other site 349520011438 Imelysin; Region: Peptidase_M75; pfam09375 349520011439 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 349520011440 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 349520011441 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 349520011442 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 349520011443 dimer interface [polypeptide binding]; other site 349520011444 active site 349520011445 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349520011446 catalytic residues [active] 349520011447 substrate binding site [chemical binding]; other site 349520011448 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349520011449 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349520011450 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 349520011451 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 349520011452 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 349520011453 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 349520011454 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 349520011455 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 349520011456 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520011457 Walker A/P-loop; other site 349520011458 ATP binding site [chemical binding]; other site 349520011459 Q-loop/lid; other site 349520011460 ABC transporter signature motif; other site 349520011461 Walker B; other site 349520011462 D-loop; other site 349520011463 H-loop/switch region; other site 349520011464 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520011465 ATP-grasp domain; Region: ATP-grasp_4; cl17255 349520011466 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 349520011467 Radical SAM superfamily; Region: Radical_SAM; pfam04055 349520011468 FeS/SAM binding site; other site 349520011469 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 349520011470 acyl carrier protein; Provisional; Region: PRK07081 349520011471 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 349520011472 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 349520011473 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 349520011474 putative active site [active] 349520011475 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 349520011476 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 349520011477 active site 349520011478 trimer interface [polypeptide binding]; other site 349520011479 allosteric site; other site 349520011480 active site lid [active] 349520011481 hexamer (dimer of trimers) interface [polypeptide binding]; other site 349520011482 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 349520011483 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 349520011484 active site 349520011485 dimer interface [polypeptide binding]; other site 349520011486 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 349520011487 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 349520011488 PGAP1-like protein; Region: PGAP1; pfam07819 349520011489 RNA polymerase sigma-F factor; Region: spore_sigF; TIGR02885 349520011490 YvrJ protein family; Region: YvrJ; pfam12841 349520011491 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 349520011492 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 349520011493 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 349520011494 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 349520011495 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 349520011496 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 349520011497 Walker A/P-loop; other site 349520011498 ATP binding site [chemical binding]; other site 349520011499 Q-loop/lid; other site 349520011500 ABC transporter signature motif; other site 349520011501 Walker B; other site 349520011502 D-loop; other site 349520011503 H-loop/switch region; other site 349520011504 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 349520011505 putative metal binding site; other site 349520011506 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 349520011507 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 349520011508 binding surface 349520011509 TPR motif; other site 349520011510 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 349520011511 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 349520011512 active site 349520011513 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 349520011514 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349520011515 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 349520011516 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 349520011517 active site turn [active] 349520011518 phosphorylation site [posttranslational modification] 349520011519 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 349520011520 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 349520011521 HPr interaction site; other site 349520011522 glycerol kinase (GK) interaction site [polypeptide binding]; other site 349520011523 active site 349520011524 phosphorylation site [posttranslational modification] 349520011525 Ethanolamine utilisation protein, EutH; Region: EutH; pfam04346 349520011526 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349520011527 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349520011528 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 349520011529 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 349520011530 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520011531 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520011532 DNA binding site [nucleotide binding] 349520011533 domain linker motif; other site 349520011534 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 349520011535 ligand binding site [chemical binding]; other site 349520011536 dimerization interface [polypeptide binding]; other site 349520011537 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 349520011538 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349520011539 Rrf2 family protein; Region: rrf2_super; TIGR00738 349520011540 Transcriptional regulator; Region: Rrf2; pfam02082 349520011541 HTH domain; Region: HTH_11; pfam08279 349520011542 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 349520011543 Mga helix-turn-helix domain; Region: Mga; pfam05043 349520011544 PRD domain; Region: PRD; pfam00874 349520011545 PRD domain; Region: PRD; pfam00874 349520011546 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 349520011547 active site 349520011548 P-loop; other site 349520011549 phosphorylation site [posttranslational modification] 349520011550 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 349520011551 active site 349520011552 phosphorylation site [posttranslational modification] 349520011553 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 349520011554 active site 349520011555 methionine cluster; other site 349520011556 phosphorylation site [posttranslational modification] 349520011557 metal binding site [ion binding]; metal-binding site 349520011558 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 349520011559 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 349520011560 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 349520011561 beta-galactosidase; Region: BGL; TIGR03356 349520011562 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 349520011563 active site 349520011564 P-loop; other site 349520011565 phosphorylation site [posttranslational modification] 349520011566 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349520011567 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520011568 NAD(P) binding site [chemical binding]; other site 349520011569 active site 349520011570 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 349520011571 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 349520011572 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349520011573 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 349520011574 BNR repeat-like domain; Region: BNR_2; pfam13088 349520011575 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 349520011576 Asp-box motif; other site 349520011577 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 349520011578 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 349520011579 active site 349520011580 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 349520011581 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 349520011582 active site 349520011583 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520011584 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 349520011585 NAD(P) binding site [chemical binding]; other site 349520011586 active site 349520011587 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 349520011588 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 349520011589 NADP binding site [chemical binding]; other site 349520011590 active site 349520011591 putative substrate binding site [chemical binding]; other site 349520011592 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 349520011593 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 349520011594 NAD(P) binding site [chemical binding]; other site 349520011595 homodimer interface [polypeptide binding]; other site 349520011596 substrate binding site [chemical binding]; other site 349520011597 active site 349520011598 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 349520011599 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 349520011600 active site 349520011601 homodimer interface [polypeptide binding]; other site 349520011602 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 349520011603 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349520011604 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 349520011605 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 349520011606 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 349520011607 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 349520011608 Flagellar biosynthesis/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliH; COG1317 349520011609 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 349520011610 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 349520011611 active site 349520011612 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 349520011613 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 349520011614 active site 349520011615 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 349520011616 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 349520011617 Probable Catalytic site; other site 349520011618 metal-binding site 349520011619 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 349520011620 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 349520011621 active site 349520011622 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 349520011623 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 349520011624 active site 349520011625 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 349520011626 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 349520011627 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 349520011628 active site 349520011629 Zn binding site [ion binding]; other site 349520011630 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 349520011631 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 349520011632 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 349520011633 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 349520011634 active site 349520011635 Zn binding site [ion binding]; other site 349520011636 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 349520011637 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349520011638 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 349520011639 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 349520011640 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 349520011641 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 349520011642 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520011643 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 349520011644 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 349520011645 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520011646 homodimer interface [polypeptide binding]; other site 349520011647 catalytic residue [active] 349520011648 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 349520011649 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520011650 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 349520011651 dimer interface [polypeptide binding]; other site 349520011652 phosphorylation site [posttranslational modification] 349520011653 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 349520011654 ATP binding site [chemical binding]; other site 349520011655 Mg2+ binding site [ion binding]; other site 349520011656 G-X-G motif; other site 349520011657 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 349520011658 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 349520011659 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 349520011660 Walker A/P-loop; other site 349520011661 ATP binding site [chemical binding]; other site 349520011662 Q-loop/lid; other site 349520011663 ABC transporter signature motif; other site 349520011664 Walker B; other site 349520011665 D-loop; other site 349520011666 H-loop/switch region; other site 349520011667 helicase 45; Provisional; Region: PTZ00424 349520011668 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 349520011669 ATP binding site [chemical binding]; other site 349520011670 Mg++ binding site [ion binding]; other site 349520011671 motif III; other site 349520011672 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 349520011673 nucleotide binding region [chemical binding]; other site 349520011674 ATP-binding site [chemical binding]; other site 349520011675 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 349520011676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520011677 NAD(P) binding site [chemical binding]; other site 349520011678 active site 349520011679 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 349520011680 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 349520011681 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520011682 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520011683 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 349520011684 dimerization interface [polypeptide binding]; other site 349520011685 histidinol-phosphatase; Provisional; Region: PRK07328 349520011686 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 349520011687 active site 349520011688 dimer interface [polypeptide binding]; other site 349520011689 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 349520011690 synthetase active site [active] 349520011691 NTP binding site [chemical binding]; other site 349520011692 metal binding site [ion binding]; metal-binding site 349520011693 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349520011694 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349520011695 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520011696 NAD(P) binding site [chemical binding]; other site 349520011697 active site 349520011698 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 349520011699 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 349520011700 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 349520011701 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349520011702 active site 349520011703 metal binding site [ion binding]; metal-binding site 349520011704 phosphodiesterase YaeI; Provisional; Region: PRK11340 349520011705 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 349520011706 putative active site [active] 349520011707 putative metal binding site [ion binding]; other site 349520011708 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 349520011709 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 349520011710 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 349520011711 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 349520011712 L-aspartate oxidase; Provisional; Region: PRK06175 349520011713 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 349520011714 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 349520011715 putative Iron-sulfur protein interface [polypeptide binding]; other site 349520011716 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 349520011717 proximal heme binding site [chemical binding]; other site 349520011718 distal heme binding site [chemical binding]; other site 349520011719 putative dimer interface [polypeptide binding]; other site 349520011720 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520011721 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520011722 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 349520011723 dimerization interface [polypeptide binding]; other site 349520011724 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 349520011725 TrkA-N domain; Region: TrkA_N; pfam02254 349520011726 TrkA-C domain; Region: TrkA_C; pfam02080 349520011727 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 349520011728 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 349520011729 CAAX protease self-immunity; Region: Abi; pfam02517 349520011730 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14666 349520011731 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 349520011732 GIY-YIG motif/motif A; other site 349520011733 active site 349520011734 catalytic site [active] 349520011735 putative DNA binding site [nucleotide binding]; other site 349520011736 metal binding site [ion binding]; metal-binding site 349520011737 UvrB/uvrC motif; Region: UVR; pfam02151 349520011738 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 349520011739 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 349520011740 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 349520011741 catalytic residues [active] 349520011742 primosomal protein DnaI; Reviewed; Region: PRK08939 349520011743 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 349520011744 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 349520011745 Walker A motif; other site 349520011746 ATP binding site [chemical binding]; other site 349520011747 Walker B motif; other site 349520011748 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 349520011749 putative heme peroxidase; Provisional; Region: PRK12276 349520011750 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 349520011751 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 349520011752 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 349520011753 ABC-2 type transporter; Region: ABC2_membrane; cl17235 349520011754 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 349520011755 Outer membrane efflux protein; Region: OEP; pfam02321 349520011756 HlyD family secretion protein; Region: HlyD_3; pfam13437 349520011757 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520011758 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 349520011759 putative DNA binding site [nucleotide binding]; other site 349520011760 putative Zn2+ binding site [ion binding]; other site 349520011761 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 349520011762 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349520011763 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 349520011764 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349520011765 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349520011766 Sporulation inhibitor A; Region: Sda; pfam08970 349520011767 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 349520011768 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 349520011769 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 349520011770 polyphosphate kinase; Provisional; Region: PRK05443 349520011771 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 349520011772 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 349520011773 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 349520011774 putative domain interface [polypeptide binding]; other site 349520011775 putative active site [active] 349520011776 catalytic site [active] 349520011777 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 349520011778 putative domain interface [polypeptide binding]; other site 349520011779 putative active site [active] 349520011780 catalytic site [active] 349520011781 hypothetical protein; Provisional; Region: PRK08236 349520011782 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 349520011783 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 349520011784 Uncharacterized conserved protein [Function unknown]; Region: COG3339 349520011785 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 349520011786 EamA-like transporter family; Region: EamA; pfam00892 349520011787 EamA-like transporter family; Region: EamA; pfam00892 349520011788 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520011789 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520011790 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 349520011791 dimerization interface [polypeptide binding]; other site 349520011792 Predicted membrane protein [Function unknown]; Region: COG2323 349520011793 Uncharacterized conserved protein [Function unknown]; Region: COG1633 349520011794 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 349520011795 dinuclear metal binding motif [ion binding]; other site 349520011796 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 349520011797 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349520011798 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 349520011799 DNA binding residues [nucleotide binding] 349520011800 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 349520011801 non-specific DNA binding site [nucleotide binding]; other site 349520011802 salt bridge; other site 349520011803 sequence-specific DNA binding site [nucleotide binding]; other site 349520011804 S-layer homology domain; Region: SLH; pfam00395 349520011805 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 349520011806 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 349520011807 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 349520011808 FeS/SAM binding site; other site 349520011809 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 349520011810 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349520011811 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349520011812 hypothetical protein; Provisional; Region: PRK13669 349520011813 NifU-like domain; Region: NifU; cl00484 349520011814 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 349520011815 classical (c) SDRs; Region: SDR_c; cd05233 349520011816 NAD(P) binding site [chemical binding]; other site 349520011817 active site 349520011818 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 349520011819 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 349520011820 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520011821 dimer interface [polypeptide binding]; other site 349520011822 conserved gate region; other site 349520011823 ABC-ATPase subunit interface; other site 349520011824 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 349520011825 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 349520011826 Walker A/P-loop; other site 349520011827 ATP binding site [chemical binding]; other site 349520011828 Q-loop/lid; other site 349520011829 ABC transporter signature motif; other site 349520011830 Walker B; other site 349520011831 D-loop; other site 349520011832 H-loop/switch region; other site 349520011833 NIL domain; Region: NIL; pfam09383 349520011834 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 349520011835 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 349520011836 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 349520011837 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 349520011838 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 349520011839 catalytic residues [active] 349520011840 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 349520011841 stage V sporulation protein B; Region: spore_V_B; TIGR02900 349520011842 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 349520011843 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2839 349520011844 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 349520011845 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 349520011846 active site 349520011847 motif I; other site 349520011848 motif II; other site 349520011849 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 349520011850 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 349520011851 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 349520011852 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 349520011853 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 349520011854 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 349520011855 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 349520011856 Colicin V production protein; Region: Colicin_V; pfam02674 349520011857 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 349520011858 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 349520011859 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 349520011860 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520011861 putative substrate translocation pore; other site 349520011862 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 349520011863 active site 349520011864 metal binding site [ion binding]; metal-binding site 349520011865 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 349520011866 UbiA prenyltransferase family; Region: UbiA; pfam01040 349520011867 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 349520011868 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 349520011869 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 349520011870 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 349520011871 active site 349520011872 HIGH motif; other site 349520011873 dimer interface [polypeptide binding]; other site 349520011874 KMSKS motif; other site 349520011875 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 349520011876 active site 349520011877 catalytic residues [active] 349520011878 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 349520011879 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 349520011880 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 349520011881 active site 349520011882 Zn binding site [ion binding]; other site 349520011883 YycC-like protein; Region: YycC; pfam14174 349520011884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 349520011885 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 349520011886 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 349520011887 apolar tunnel; other site 349520011888 heme binding site [chemical binding]; other site 349520011889 dimerization interface [polypeptide binding]; other site 349520011890 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 349520011891 Nucleoside recognition; Region: Gate; pfam07670 349520011892 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 349520011893 ATP-NAD kinase; Region: NAD_kinase; pfam01513 349520011894 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 349520011895 lipoyl synthase; Provisional; Region: PRK05481 349520011896 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 349520011897 FeS/SAM binding site; other site 349520011898 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 349520011899 Peptidase family M23; Region: Peptidase_M23; pfam01551 349520011900 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 349520011901 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 349520011902 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349520011903 active site 349520011904 catalytic tetrad [active] 349520011905 A new structural DNA glycosylase; Region: AlkD_like; cd06561 349520011906 active site 349520011907 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 349520011908 endonuclease III; Region: ENDO3c; smart00478 349520011909 minor groove reading motif; other site 349520011910 helix-hairpin-helix signature motif; other site 349520011911 substrate binding pocket [chemical binding]; other site 349520011912 active site 349520011913 Radical SAM superfamily; Region: Radical_SAM; pfam04055 349520011914 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 349520011915 FeS/SAM binding site; other site 349520011916 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 349520011917 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 349520011918 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 349520011919 DNA binding site [nucleotide binding] 349520011920 active site 349520011921 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 349520011922 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 349520011923 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520011924 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520011925 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 349520011926 amino acid carrier protein; Region: agcS; TIGR00835 349520011927 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 349520011928 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 349520011929 active site turn [active] 349520011930 phosphorylation site [posttranslational modification] 349520011931 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 349520011932 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 349520011933 HPr interaction site; other site 349520011934 glycerol kinase (GK) interaction site [polypeptide binding]; other site 349520011935 active site 349520011936 phosphorylation site [posttranslational modification] 349520011937 transcriptional antiterminator BglG; Provisional; Region: PRK09772 349520011938 CAT RNA binding domain; Region: CAT_RBD; smart01061 349520011939 PRD domain; Region: PRD; pfam00874 349520011940 PRD domain; Region: PRD; pfam00874 349520011941 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 349520011942 beta-galactosidase; Region: BGL; TIGR03356 349520011943 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 349520011944 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 349520011945 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 349520011946 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 349520011947 TrkA-N domain; Region: TrkA_N; pfam02254 349520011948 TrkA-C domain; Region: TrkA_C; pfam02080 349520011949 Small, acid-soluble spore protein I; Region: SSPI; pfam14098 349520011950 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 349520011951 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 349520011952 G1 box; other site 349520011953 putative GEF interaction site [polypeptide binding]; other site 349520011954 GTP/Mg2+ binding site [chemical binding]; other site 349520011955 Switch I region; other site 349520011956 G2 box; other site 349520011957 G3 box; other site 349520011958 Switch II region; other site 349520011959 G4 box; other site 349520011960 G5 box; other site 349520011961 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 349520011962 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 349520011963 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 349520011964 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 349520011965 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 349520011966 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349520011967 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 349520011968 active site 349520011969 phosphorylation site [posttranslational modification] 349520011970 intermolecular recognition site; other site 349520011971 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 349520011972 DNA binding residues [nucleotide binding] 349520011973 dimerization interface [polypeptide binding]; other site 349520011974 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 349520011975 Histidine kinase; Region: HisKA_3; pfam07730 349520011976 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 349520011977 ATP binding site [chemical binding]; other site 349520011978 Mg2+ binding site [ion binding]; other site 349520011979 G-X-G motif; other site 349520011980 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 349520011981 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 349520011982 PspC domain; Region: PspC; pfam04024 349520011983 PspA/IM30 family; Region: PspA_IM30; pfam04012 349520011984 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 349520011985 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520011986 putative substrate translocation pore; other site 349520011987 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520011988 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520011989 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520011990 Bacterial SH3 domain homologues; Region: SH3b; smart00287 349520011991 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 349520011992 active site 349520011993 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 349520011994 metal binding site 2 [ion binding]; metal-binding site 349520011995 putative DNA binding helix; other site 349520011996 metal binding site 1 [ion binding]; metal-binding site 349520011997 dimer interface [polypeptide binding]; other site 349520011998 structural Zn2+ binding site [ion binding]; other site 349520011999 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 349520012000 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 349520012001 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 349520012002 MgtC family; Region: MgtC; pfam02308 349520012003 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520012004 Coenzyme A binding pocket [chemical binding]; other site 349520012005 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 349520012006 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 349520012007 GatB domain; Region: GatB_Yqey; smart00845 349520012008 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 349520012009 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 349520012010 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 349520012011 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 349520012012 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 349520012013 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 349520012014 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 349520012015 Methyltransferase domain; Region: Methyltransf_31; pfam13847 349520012016 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 349520012017 S-adenosylmethionine binding site [chemical binding]; other site 349520012018 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 349520012019 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 349520012020 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 349520012021 Protein of unknown function (DUF1128); Region: DUF1128; cl11553 349520012022 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 349520012023 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 349520012024 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 349520012025 active site 349520012026 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 349520012027 Escherichia coli CorA-Salmonella typhimurium ZntB_like family; Region: EcCorA_ZntB-like; cd12821 349520012028 Cl binding site [ion binding]; other site 349520012029 oligomer interface [polypeptide binding]; other site 349520012030 RNA polymerase sigma factor SigB; Validated; Region: PRK08583 349520012031 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349520012032 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 349520012033 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; cl17257 349520012034 DNA binding residues [nucleotide binding] 349520012035 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 349520012036 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 349520012037 ATP binding site [chemical binding]; other site 349520012038 Mg2+ binding site [ion binding]; other site 349520012039 G-X-G motif; other site 349520012040 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 349520012041 anti sigma factor interaction site; other site 349520012042 regulatory phosphorylation site [posttranslational modification]; other site 349520012043 Response regulator receiver domain; Region: Response_reg; pfam00072 349520012044 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 349520012045 active site 349520012046 phosphorylation site [posttranslational modification] 349520012047 intermolecular recognition site; other site 349520012048 dimerization interface [polypeptide binding]; other site 349520012049 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520012050 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 349520012051 dimer interface [polypeptide binding]; other site 349520012052 phosphorylation site [posttranslational modification] 349520012053 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 349520012054 ATP binding site [chemical binding]; other site 349520012055 Mg2+ binding site [ion binding]; other site 349520012056 G-X-G motif; other site 349520012057 Response regulator receiver domain; Region: Response_reg; pfam00072 349520012058 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 349520012059 active site 349520012060 phosphorylation site [posttranslational modification] 349520012061 intermolecular recognition site; other site 349520012062 dimerization interface [polypeptide binding]; other site 349520012063 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 349520012064 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 349520012065 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 349520012066 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 349520012067 HAMP domain; Region: HAMP; pfam00672 349520012068 GAF domain; Region: GAF_3; pfam13492 349520012069 GAF domain; Region: GAF_2; pfam13185 349520012070 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520012071 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 349520012072 dimer interface [polypeptide binding]; other site 349520012073 phosphorylation site [posttranslational modification] 349520012074 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 349520012075 ATP binding site [chemical binding]; other site 349520012076 Mg2+ binding site [ion binding]; other site 349520012077 G-X-G motif; other site 349520012078 Response regulator receiver domain; Region: Response_reg; pfam00072 349520012079 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 349520012080 active site 349520012081 phosphorylation site [posttranslational modification] 349520012082 intermolecular recognition site; other site 349520012083 dimerization interface [polypeptide binding]; other site 349520012084 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 349520012085 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 349520012086 active site 349520012087 phosphorylation site [posttranslational modification] 349520012088 intermolecular recognition site; other site 349520012089 dimerization interface [polypeptide binding]; other site 349520012090 Response regulator receiver domain; Region: Response_reg; pfam00072 349520012091 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 349520012092 active site 349520012093 phosphorylation site [posttranslational modification] 349520012094 intermolecular recognition site; other site 349520012095 dimerization interface [polypeptide binding]; other site 349520012096 Response regulator receiver domain; Region: Response_reg; pfam00072 349520012097 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 349520012098 active site 349520012099 phosphorylation site [posttranslational modification] 349520012100 intermolecular recognition site; other site 349520012101 dimerization interface [polypeptide binding]; other site 349520012102 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 349520012103 Heat induced stress protein YflT; Region: YflT; pfam11181 349520012104 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 349520012105 Bacterial SH3 domain; Region: SH3_3; pfam08239 349520012106 Bacterial SH3 domain; Region: SH3_3; pfam08239 349520012107 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 349520012108 NlpC/P60 family; Region: NLPC_P60; pfam00877 349520012109 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 349520012110 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 349520012111 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 349520012112 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349520012113 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349520012114 ABC transporter; Region: ABC_tran_2; pfam12848 349520012115 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349520012116 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 349520012117 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349520012118 Walker A/P-loop; other site 349520012119 ATP binding site [chemical binding]; other site 349520012120 Q-loop/lid; other site 349520012121 ABC transporter signature motif; other site 349520012122 Walker B; other site 349520012123 D-loop; other site 349520012124 H-loop/switch region; other site 349520012125 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 349520012126 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 349520012127 dimer interface [polypeptide binding]; other site 349520012128 ABC-ATPase subunit interface; other site 349520012129 putative PBP binding regions; other site 349520012130 heme ABC transporter, heme-binding protein isdE; Region: IsdE; TIGR03659 349520012131 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 349520012132 intersubunit interface [polypeptide binding]; other site 349520012133 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cl02760 349520012134 heme-binding site [chemical binding]; other site 349520012135 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 349520012136 heme-binding site [chemical binding]; other site 349520012137 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 349520012138 heme-binding site [chemical binding]; other site 349520012139 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 349520012140 heme-binding site [chemical binding]; other site 349520012141 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cl02760 349520012142 heme-binding site [chemical binding]; other site 349520012143 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 349520012144 heme-binding site [chemical binding]; other site 349520012145 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 349520012146 heme-binding site [chemical binding]; other site 349520012147 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 349520012148 heme-binding site [chemical binding]; other site 349520012149 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 349520012150 heme-binding site [chemical binding]; other site 349520012151 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 349520012152 heme-binding site [chemical binding]; other site 349520012153 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 349520012154 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 349520012155 intersubunit interface [polypeptide binding]; other site 349520012156 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 349520012157 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 349520012158 ABC-ATPase subunit interface; other site 349520012159 dimer interface [polypeptide binding]; other site 349520012160 putative PBP binding regions; other site 349520012161 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 349520012162 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349520012163 Walker A/P-loop; other site 349520012164 ATP binding site [chemical binding]; other site 349520012165 Q-loop/lid; other site 349520012166 ABC transporter signature motif; other site 349520012167 Walker B; other site 349520012168 D-loop; other site 349520012169 H-loop/switch region; other site 349520012170 heme-degrading monooxygenase IsdG; Provisional; Region: PRK13314 349520012171 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 349520012172 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 349520012173 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 349520012174 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 349520012175 MarR family; Region: MarR_2; cl17246 349520012176 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 349520012177 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 349520012178 putative substrate translocation pore; other site 349520012179 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 349520012180 Virulence factor; Region: Virulence_fact; pfam13769 349520012181 HEAT repeats; Region: HEAT_2; pfam13646 349520012182 HEAT repeats; Region: HEAT_2; pfam13646 349520012183 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 349520012184 lysine transporter; Provisional; Region: PRK10836 349520012185 H+ Antiporter protein; Region: 2A0121; TIGR00900 349520012186 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 349520012187 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 349520012188 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 349520012189 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 349520012190 G1 box; other site 349520012191 GTP/Mg2+ binding site [chemical binding]; other site 349520012192 Switch I region; other site 349520012193 G2 box; other site 349520012194 G3 box; other site 349520012195 Switch II region; other site 349520012196 G4 box; other site 349520012197 G5 box; other site 349520012198 Nucleoside recognition; Region: Gate; pfam07670 349520012199 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 349520012200 Nucleoside recognition; Region: Gate; pfam07670 349520012201 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 349520012202 N- and C-terminal domain interface [polypeptide binding]; other site 349520012203 D-xylulose kinase; Region: XylB; TIGR01312 349520012204 active site 349520012205 MgATP binding site [chemical binding]; other site 349520012206 catalytic site [active] 349520012207 metal binding site [ion binding]; metal-binding site 349520012208 xylulose binding site [chemical binding]; other site 349520012209 homodimer interface [polypeptide binding]; other site 349520012210 xylose isomerase; Provisional; Region: PRK05474 349520012211 xylose isomerase; Region: xylose_isom_A; TIGR02630 349520012212 MarR family; Region: MarR_2; pfam12802 349520012213 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 349520012214 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 349520012215 nucleotide binding site [chemical binding]; other site 349520012216 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 349520012217 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 349520012218 catalytic residues [active] 349520012219 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 349520012220 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349520012221 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349520012222 ZIP Zinc transporter; Region: Zip; pfam02535 349520012223 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 349520012224 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 349520012225 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 349520012226 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349520012227 lipoyl-biotinyl attachment site [posttranslational modification]; other site 349520012228 HlyD family secretion protein; Region: HlyD_3; pfam13437 349520012229 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 349520012230 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 349520012231 putative substrate translocation pore; other site 349520012232 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 349520012233 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349520012234 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 349520012235 motif II; other site 349520012236 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 349520012237 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 349520012238 metal-binding site [ion binding] 349520012239 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 349520012240 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349520012241 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 349520012242 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 349520012243 dimerization interface [polypeptide binding]; other site 349520012244 putative DNA binding site [nucleotide binding]; other site 349520012245 putative Zn2+ binding site [ion binding]; other site 349520012246 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 349520012247 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 349520012248 putative active site [active] 349520012249 putative FMN binding site [chemical binding]; other site 349520012250 putative substrate binding site [chemical binding]; other site 349520012251 putative catalytic residue [active] 349520012252 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 349520012253 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 349520012254 Subunit I/III interface [polypeptide binding]; other site 349520012255 Subunit III/IV interface [polypeptide binding]; other site 349520012256 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 349520012257 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 349520012258 D-pathway; other site 349520012259 Putative ubiquinol binding site [chemical binding]; other site 349520012260 Low-spin heme (heme b) binding site [chemical binding]; other site 349520012261 Putative water exit pathway; other site 349520012262 Binuclear center (heme o3/CuB) [ion binding]; other site 349520012263 K-pathway; other site 349520012264 Putative proton exit pathway; other site 349520012265 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 349520012266 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 349520012267 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 349520012268 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 349520012269 beta-galactosidase; Region: BGL; TIGR03356 349520012270 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520012271 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520012272 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520012273 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520012274 dimer interface [polypeptide binding]; other site 349520012275 conserved gate region; other site 349520012276 putative PBP binding loops; other site 349520012277 ABC-ATPase subunit interface; other site 349520012278 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 349520012279 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520012280 dimer interface [polypeptide binding]; other site 349520012281 conserved gate region; other site 349520012282 putative PBP binding loops; other site 349520012283 ABC-ATPase subunit interface; other site 349520012284 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 349520012285 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 349520012286 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 349520012287 Walker A/P-loop; other site 349520012288 ATP binding site [chemical binding]; other site 349520012289 Q-loop/lid; other site 349520012290 ABC transporter signature motif; other site 349520012291 Walker B; other site 349520012292 D-loop; other site 349520012293 H-loop/switch region; other site 349520012294 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 349520012295 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520012296 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520012297 Walker A/P-loop; other site 349520012298 ATP binding site [chemical binding]; other site 349520012299 Q-loop/lid; other site 349520012300 ABC transporter signature motif; other site 349520012301 Walker B; other site 349520012302 D-loop; other site 349520012303 H-loop/switch region; other site 349520012304 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 349520012305 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 349520012306 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 349520012307 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 349520012308 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 349520012309 Response regulator receiver domain; Region: Response_reg; pfam00072 349520012310 active site 349520012311 phosphorylation site [posttranslational modification] 349520012312 intermolecular recognition site; other site 349520012313 dimerization interface [polypeptide binding]; other site 349520012314 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520012315 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520012316 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520012317 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 349520012318 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 349520012319 dimerization interface [polypeptide binding]; other site 349520012320 Histidine kinase; Region: His_kinase; pfam06580 349520012321 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 349520012322 ATP binding site [chemical binding]; other site 349520012323 Mg2+ binding site [ion binding]; other site 349520012324 G-X-G motif; other site 349520012325 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 349520012326 active site 349520012327 catalytic residues [active] 349520012328 metal binding site [ion binding]; metal-binding site 349520012329 Uncharacterized proteins similar to Bacillus subtilis YncM; Region: YncM_like; cd13427 349520012330 putative binding site; other site 349520012331 putative dimer interface [polypeptide binding]; other site 349520012332 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 349520012333 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 349520012334 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 349520012335 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 349520012336 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 349520012337 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520012338 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 349520012339 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 349520012340 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 349520012341 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 349520012342 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 349520012343 active site 349520012344 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 349520012345 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 349520012346 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 349520012347 active site 349520012348 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 349520012349 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 349520012350 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 349520012351 Domain of unknown function DUF21; Region: DUF21; pfam01595 349520012352 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 349520012353 Transporter associated domain; Region: CorC_HlyC; cl08393 349520012354 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 349520012355 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 349520012356 catalytic residues [active] 349520012357 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 349520012358 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349520012359 active site 349520012360 catalytic tetrad [active] 349520012361 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 349520012362 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 349520012363 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 349520012364 putative ligand binding residues [chemical binding]; other site 349520012365 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 349520012366 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349520012367 Walker A/P-loop; other site 349520012368 ATP binding site [chemical binding]; other site 349520012369 Q-loop/lid; other site 349520012370 ABC transporter signature motif; other site 349520012371 Walker B; other site 349520012372 D-loop; other site 349520012373 H-loop/switch region; other site 349520012374 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 349520012375 ABC-ATPase subunit interface; other site 349520012376 dimer interface [polypeptide binding]; other site 349520012377 putative PBP binding regions; other site 349520012378 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 349520012379 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 349520012380 ABC-ATPase subunit interface; other site 349520012381 dimer interface [polypeptide binding]; other site 349520012382 putative PBP binding regions; other site 349520012383 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520012384 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 349520012385 active site 349520012386 phosphorylation site [posttranslational modification] 349520012387 intermolecular recognition site; other site 349520012388 dimerization interface [polypeptide binding]; other site 349520012389 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 349520012390 DNA binding site [nucleotide binding] 349520012391 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520012392 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 349520012393 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 349520012394 ATP binding site [chemical binding]; other site 349520012395 Mg2+ binding site [ion binding]; other site 349520012396 G-X-G motif; other site 349520012397 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 349520012398 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 349520012399 Walker A/P-loop; other site 349520012400 ATP binding site [chemical binding]; other site 349520012401 Q-loop/lid; other site 349520012402 ABC transporter signature motif; other site 349520012403 Walker B; other site 349520012404 D-loop; other site 349520012405 H-loop/switch region; other site 349520012406 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 349520012407 FtsX-like permease family; Region: FtsX; pfam02687 349520012408 FtsX-like permease family; Region: FtsX; pfam02687 349520012409 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 349520012410 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 349520012411 Coenzyme A binding pocket [chemical binding]; other site 349520012412 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 349520012413 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349520012414 Zn binding site [ion binding]; other site 349520012415 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 349520012416 Zn binding site [ion binding]; other site 349520012417 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 349520012418 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 349520012419 active site 349520012420 Zn binding site [ion binding]; other site 349520012421 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 349520012422 dimer interface [polypeptide binding]; other site 349520012423 substrate binding site [chemical binding]; other site 349520012424 ATP binding site [chemical binding]; other site 349520012425 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 349520012426 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 349520012427 active site 349520012428 metal binding site [ion binding]; metal-binding site 349520012429 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 349520012430 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 349520012431 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 349520012432 membrane-bound complex binding site; other site 349520012433 hinge residues; other site 349520012434 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 349520012435 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 349520012436 Walker A/P-loop; other site 349520012437 ATP binding site [chemical binding]; other site 349520012438 Q-loop/lid; other site 349520012439 ABC transporter signature motif; other site 349520012440 Walker B; other site 349520012441 D-loop; other site 349520012442 H-loop/switch region; other site 349520012443 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 349520012444 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520012445 dimer interface [polypeptide binding]; other site 349520012446 conserved gate region; other site 349520012447 ABC-ATPase subunit interface; other site 349520012448 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 349520012449 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520012450 dimer interface [polypeptide binding]; other site 349520012451 conserved gate region; other site 349520012452 putative PBP binding loops; other site 349520012453 ABC-ATPase subunit interface; other site 349520012454 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 349520012455 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 349520012456 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349520012457 catalytic residue [active] 349520012458 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520012459 dimer interface [polypeptide binding]; other site 349520012460 conserved gate region; other site 349520012461 putative PBP binding loops; other site 349520012462 ABC-ATPase subunit interface; other site 349520012463 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 349520012464 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520012465 dimer interface [polypeptide binding]; other site 349520012466 conserved gate region; other site 349520012467 putative PBP binding loops; other site 349520012468 ABC-ATPase subunit interface; other site 349520012469 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 349520012470 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 349520012471 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 349520012472 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 349520012473 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 349520012474 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 349520012475 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 349520012476 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 349520012477 phosphopentomutase; Provisional; Region: PRK05362 349520012478 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 349520012479 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 349520012480 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 349520012481 Nucleoside recognition; Region: Gate; pfam07670 349520012482 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 349520012483 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 349520012484 active site 349520012485 catalytic motif [active] 349520012486 Zn binding site [ion binding]; other site 349520012487 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 349520012488 intersubunit interface [polypeptide binding]; other site 349520012489 active site 349520012490 catalytic residue [active] 349520012491 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 349520012492 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 349520012493 DNA binding residues [nucleotide binding] 349520012494 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 349520012495 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; cd00588 349520012496 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 349520012497 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 349520012498 Glycosyl hydrolase family 81; Region: Glyco_hydro_81; cl02310 349520012499 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 349520012500 Interdomain contacts; other site 349520012501 Cytokine receptor motif; other site 349520012502 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 349520012503 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 349520012504 catalytic motif [active] 349520012505 Zn binding site [ion binding]; other site 349520012506 RibD C-terminal domain; Region: RibD_C; cl17279 349520012507 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 349520012508 dimerization interface [polypeptide binding]; other site 349520012509 active site 349520012510 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 349520012511 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 349520012512 Predicted transcriptional regulators [Transcription]; Region: COG1733 349520012513 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 349520012514 Predicted transcriptional regulators [Transcription]; Region: COG1733 349520012515 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 349520012516 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 349520012517 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 349520012518 conserved cys residue [active] 349520012519 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 349520012520 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 349520012521 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 349520012522 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 349520012523 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 349520012524 Predicted transcriptional regulators [Transcription]; Region: COG1733 349520012525 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 349520012526 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 349520012527 Low molecular weight phosphatase family; Region: LMWPc; cd00115 349520012528 active site 349520012529 arsenical pump membrane protein; Provisional; Region: PRK15445 349520012530 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 349520012531 transmembrane helices; other site 349520012532 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 349520012533 dimerization interface [polypeptide binding]; other site 349520012534 putative DNA binding site [nucleotide binding]; other site 349520012535 putative Zn2+ binding site [ion binding]; other site 349520012536 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 349520012537 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 349520012538 sugar efflux transporter; Region: 2A0120; TIGR00899 349520012539 putative substrate translocation pore; other site 349520012540 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 349520012541 TDP-binding site; other site 349520012542 homodimer interface [polypeptide binding]; other site 349520012543 Pectate lyase; Region: Pec_lyase_C; cl01593 349520012544 putative pectinesterase; Region: PLN02432; cl01911 349520012545 Pectinesterase; Region: Pectinesterase; pfam01095 349520012546 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 349520012547 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 349520012548 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520012549 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520012550 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 349520012551 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 349520012552 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349520012553 catalytic residue [active] 349520012554 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520012555 MarR family; Region: MarR_2; cl17246 349520012556 Small acid-soluble spore protein H family; Region: SspH; pfam08141 349520012557 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 349520012558 glycosyltransferase, MGT family; Region: MGT; TIGR01426 349520012559 active site 349520012560 TDP-binding site; other site 349520012561 acceptor substrate-binding pocket; other site 349520012562 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 349520012563 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 349520012564 substrate binding [chemical binding]; other site 349520012565 active site 349520012566 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 349520012567 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520012568 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520012569 dimer interface [polypeptide binding]; other site 349520012570 conserved gate region; other site 349520012571 putative PBP binding loops; other site 349520012572 ABC-ATPase subunit interface; other site 349520012573 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 349520012574 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520012575 dimer interface [polypeptide binding]; other site 349520012576 conserved gate region; other site 349520012577 putative PBP binding loops; other site 349520012578 ABC-ATPase subunit interface; other site 349520012579 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520012580 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 349520012581 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520012582 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520012583 DNA binding site [nucleotide binding] 349520012584 domain linker motif; other site 349520012585 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 349520012586 dimerization interface [polypeptide binding]; other site 349520012587 ligand binding site [chemical binding]; other site 349520012588 sodium binding site [ion binding]; other site 349520012589 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 349520012590 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 349520012591 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 349520012592 active site 349520012593 active site 349520012594 catalytic residues [active] 349520012595 Predicted integral membrane protein [Function unknown]; Region: COG0392 349520012596 Uncharacterized conserved protein [Function unknown]; Region: COG2898 349520012597 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 349520012598 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 349520012599 active site 349520012600 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 349520012601 S-adenosylmethionine binding site [chemical binding]; other site 349520012602 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520012603 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 349520012604 active site 349520012605 phosphorylation site [posttranslational modification] 349520012606 intermolecular recognition site; other site 349520012607 dimerization interface [polypeptide binding]; other site 349520012608 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 349520012609 DNA binding site [nucleotide binding] 349520012610 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520012611 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 349520012612 dimerization interface [polypeptide binding]; other site 349520012613 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 349520012614 dimer interface [polypeptide binding]; other site 349520012615 phosphorylation site [posttranslational modification] 349520012616 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 349520012617 ATP binding site [chemical binding]; other site 349520012618 Mg2+ binding site [ion binding]; other site 349520012619 G-X-G motif; other site 349520012620 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 349520012621 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 349520012622 NodB motif; other site 349520012623 putative active site [active] 349520012624 putative catalytic site [active] 349520012625 putative Zn binding site [ion binding]; other site 349520012626 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 349520012627 potential frameshift: common BLAST hit: gi|222098546|ref|YP_002532604.1| DedA family protein 349520012628 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 349520012629 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 349520012630 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 349520012631 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 349520012632 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 349520012633 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 349520012634 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 349520012635 S-adenosylmethionine binding site [chemical binding]; other site 349520012636 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520012637 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 349520012638 active site 349520012639 phosphorylation site [posttranslational modification] 349520012640 intermolecular recognition site; other site 349520012641 dimerization interface [polypeptide binding]; other site 349520012642 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 349520012643 DNA binding site [nucleotide binding] 349520012644 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520012645 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 349520012646 dimerization interface [polypeptide binding]; other site 349520012647 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 349520012648 dimer interface [polypeptide binding]; other site 349520012649 phosphorylation site [posttranslational modification] 349520012650 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 349520012651 ATP binding site [chemical binding]; other site 349520012652 Mg2+ binding site [ion binding]; other site 349520012653 G-X-G motif; other site 349520012654 Condensation domain; Region: Condensation; pfam00668 349520012655 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520012656 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 349520012657 acyl-activating enzyme (AAE) consensus motif; other site 349520012658 AMP binding site [chemical binding]; other site 349520012659 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520012660 peptide synthase; Provisional; Region: PRK12467 349520012661 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520012662 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520012663 acyl-activating enzyme (AAE) consensus motif; other site 349520012664 AMP binding site [chemical binding]; other site 349520012665 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520012666 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520012667 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 349520012668 acyl-activating enzyme (AAE) consensus motif; other site 349520012669 AMP binding site [chemical binding]; other site 349520012670 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520012671 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 349520012672 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 349520012673 acyl-activating enzyme (AAE) consensus motif; other site 349520012674 AMP binding site [chemical binding]; other site 349520012675 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520012676 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520012677 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520012678 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 349520012679 acyl-activating enzyme (AAE) consensus motif; other site 349520012680 AMP binding site [chemical binding]; other site 349520012681 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520012682 Condensation domain; Region: Condensation; pfam00668 349520012683 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520012684 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520012685 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349520012686 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520012687 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 349520012688 Walker A/P-loop; other site 349520012689 ATP binding site [chemical binding]; other site 349520012690 Q-loop/lid; other site 349520012691 ABC transporter signature motif; other site 349520012692 Walker B; other site 349520012693 D-loop; other site 349520012694 H-loop/switch region; other site 349520012695 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349520012696 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520012697 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 349520012698 Walker A/P-loop; other site 349520012699 ATP binding site [chemical binding]; other site 349520012700 Q-loop/lid; other site 349520012701 ABC transporter signature motif; other site 349520012702 Walker B; other site 349520012703 D-loop; other site 349520012704 H-loop/switch region; other site 349520012705 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520012706 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 349520012707 acyl-activating enzyme (AAE) consensus motif; other site 349520012708 AMP binding site [chemical binding]; other site 349520012709 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520012710 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 349520012711 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520012712 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520012713 acyl-activating enzyme (AAE) consensus motif; other site 349520012714 AMP binding site [chemical binding]; other site 349520012715 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520012716 Condensation domain; Region: Condensation; pfam00668 349520012717 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 349520012718 Condensation domain; Region: Condensation; pfam00668 349520012719 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520012720 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520012721 acyl-activating enzyme (AAE) consensus motif; other site 349520012722 AMP binding site [chemical binding]; other site 349520012723 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520012724 Condensation domain; Region: Condensation; pfam00668 349520012725 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520012726 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520012727 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 349520012728 acyl-activating enzyme (AAE) consensus motif; other site 349520012729 AMP binding site [chemical binding]; other site 349520012730 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520012731 Condensation domain; Region: Condensation; pfam00668 349520012732 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520012733 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520012734 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 349520012735 acyl-activating enzyme (AAE) consensus motif; other site 349520012736 AMP binding site [chemical binding]; other site 349520012737 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 349520012738 Condensation domain; Region: Condensation; pfam00668 349520012739 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 349520012740 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 349520012741 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 349520012742 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 349520012743 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 349520012744 non-specific DNA binding site [nucleotide binding]; other site 349520012745 salt bridge; other site 349520012746 sequence-specific DNA binding site [nucleotide binding]; other site 349520012747 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 349520012748 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520012749 AAA domain; Region: AAA_23; pfam13476 349520012750 Walker A/P-loop; other site 349520012751 ATP binding site [chemical binding]; other site 349520012752 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 349520012753 putative active site [active] 349520012754 putative metal-binding site [ion binding]; other site 349520012755 Part of AAA domain; Region: AAA_19; pfam13245 349520012756 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 349520012757 Family description; Region: UvrD_C_2; pfam13538 349520012758 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 349520012759 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 349520012760 Walker A/P-loop; other site 349520012761 ATP binding site [chemical binding]; other site 349520012762 Q-loop/lid; other site 349520012763 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 349520012764 ABC transporter signature motif; other site 349520012765 Walker B; other site 349520012766 D-loop; other site 349520012767 H-loop/switch region; other site 349520012768 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 349520012769 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 349520012770 active site 349520012771 metal binding site [ion binding]; metal-binding site 349520012772 DNA binding site [nucleotide binding] 349520012773 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 349520012774 potential frameshift: common BLAST hit: gi|226311006|ref|YP_002770900.1| transposase 349520012775 Transposase, Mutator family; Region: Transposase_mut; pfam00872 349520012776 Transposase, Mutator family; Region: Transposase_mut; pfam00872 349520012777 TniQ; Region: TniQ; pfam06527 349520012778 AAA domain; Region: AAA_22; pfam13401 349520012779 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 349520012780 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 349520012781 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 349520012782 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 349520012783 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 349520012784 glutaminase active site [active] 349520012785 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 349520012786 dimer interface [polypeptide binding]; other site 349520012787 active site 349520012788 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 349520012789 dimer interface [polypeptide binding]; other site 349520012790 active site 349520012791 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 349520012792 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 349520012793 active site 349520012794 substrate binding site [chemical binding]; other site 349520012795 metal binding site [ion binding]; metal-binding site 349520012796 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 349520012797 YbbR-like protein; Region: YbbR; pfam07949 349520012798 YbbR-like protein; Region: YbbR; pfam07949 349520012799 Uncharacterized conserved protein [Function unknown]; Region: COG1624 349520012800 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 349520012801 Putative zinc-finger; Region: zf-HC2; pfam13490 349520012802 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 349520012803 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 349520012804 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 349520012805 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349520012806 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 349520012807 DNA binding residues [nucleotide binding] 349520012808 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 349520012809 Phosphoenolpyruvate carboxylase; Region: PEPcase; pfam00311 349520012810 Uncharacterized membrane protein [Function unknown]; Region: SpoIIM; COG1300 349520012811 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 349520012812 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 349520012813 Domain of unknown function DUF59; Region: DUF59; pfam01883 349520012814 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 349520012815 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 349520012816 Walker A motif; other site 349520012817 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 349520012818 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 349520012819 active site 349520012820 metal binding site [ion binding]; metal-binding site 349520012821 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 349520012822 ATP-sulfurylase; Region: ATPS; cd00517 349520012823 active site 349520012824 HXXH motif; other site 349520012825 flexible loop; other site 349520012826 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 349520012827 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 349520012828 Active Sites [active] 349520012829 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 349520012830 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 349520012831 23S rRNA interface [nucleotide binding]; other site 349520012832 L3 interface [polypeptide binding]; other site 349520012833 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 349520012834 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 349520012835 dimerization interface 3.5A [polypeptide binding]; other site 349520012836 active site 349520012837 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 349520012838 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 349520012839 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 349520012840 alphaNTD - beta interaction site [polypeptide binding]; other site 349520012841 alphaNTD homodimer interface [polypeptide binding]; other site 349520012842 alphaNTD - beta' interaction site [polypeptide binding]; other site 349520012843 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 349520012844 30S ribosomal protein S11; Validated; Region: PRK05309 349520012845 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 349520012846 30S ribosomal protein S13; Region: bact_S13; TIGR03631 349520012847 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 349520012848 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 349520012849 rRNA binding site [nucleotide binding]; other site 349520012850 predicted 30S ribosome binding site; other site 349520012851 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 349520012852 RNA binding site [nucleotide binding]; other site 349520012853 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 349520012854 adenylate kinase; Reviewed; Region: adk; PRK00279 349520012855 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 349520012856 AMP-binding site [chemical binding]; other site 349520012857 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 349520012858 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 349520012859 SecY translocase; Region: SecY; pfam00344 349520012860 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 349520012861 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 349520012862 23S rRNA binding site [nucleotide binding]; other site 349520012863 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 349520012864 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 349520012865 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 349520012866 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 349520012867 5S rRNA interface [nucleotide binding]; other site 349520012868 L27 interface [polypeptide binding]; other site 349520012869 23S rRNA interface [nucleotide binding]; other site 349520012870 L5 interface [polypeptide binding]; other site 349520012871 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 349520012872 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 349520012873 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 349520012874 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 349520012875 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 349520012876 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 349520012877 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 349520012878 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 349520012879 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 349520012880 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 349520012881 RNA binding site [nucleotide binding]; other site 349520012882 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 349520012883 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 349520012884 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 349520012885 23S rRNA interface [nucleotide binding]; other site 349520012886 putative translocon interaction site; other site 349520012887 signal recognition particle (SRP54) interaction site; other site 349520012888 L23 interface [polypeptide binding]; other site 349520012889 trigger factor interaction site; other site 349520012890 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 349520012891 23S rRNA interface [nucleotide binding]; other site 349520012892 5S rRNA interface [nucleotide binding]; other site 349520012893 putative antibiotic binding site [chemical binding]; other site 349520012894 L25 interface [polypeptide binding]; other site 349520012895 L27 interface [polypeptide binding]; other site 349520012896 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 349520012897 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 349520012898 G-X-X-G motif; other site 349520012899 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 349520012900 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 349520012901 putative translocon binding site; other site 349520012902 protein-rRNA interface [nucleotide binding]; other site 349520012903 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 349520012904 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 349520012905 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 349520012906 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 349520012907 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 349520012908 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 349520012909 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 349520012910 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 349520012911 elongation factor Tu; Reviewed; Region: PRK00049 349520012912 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 349520012913 G1 box; other site 349520012914 GEF interaction site [polypeptide binding]; other site 349520012915 GTP/Mg2+ binding site [chemical binding]; other site 349520012916 Switch I region; other site 349520012917 G2 box; other site 349520012918 G3 box; other site 349520012919 Switch II region; other site 349520012920 G4 box; other site 349520012921 G5 box; other site 349520012922 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 349520012923 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 349520012924 Antibiotic Binding Site [chemical binding]; other site 349520012925 elongation factor G; Reviewed; Region: PRK00007 349520012926 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 349520012927 G1 box; other site 349520012928 putative GEF interaction site [polypeptide binding]; other site 349520012929 GTP/Mg2+ binding site [chemical binding]; other site 349520012930 Switch I region; other site 349520012931 G2 box; other site 349520012932 G3 box; other site 349520012933 Switch II region; other site 349520012934 G4 box; other site 349520012935 G5 box; other site 349520012936 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 349520012937 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 349520012938 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 349520012939 30S ribosomal protein S7; Validated; Region: PRK05302 349520012940 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 349520012941 S17 interaction site [polypeptide binding]; other site 349520012942 S8 interaction site; other site 349520012943 16S rRNA interaction site [nucleotide binding]; other site 349520012944 streptomycin interaction site [chemical binding]; other site 349520012945 23S rRNA interaction site [nucleotide binding]; other site 349520012946 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 349520012947 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602 349520012948 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 349520012949 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 349520012950 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 349520012951 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 349520012952 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 349520012953 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 349520012954 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 349520012955 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 349520012956 G-loop; other site 349520012957 DNA binding site [nucleotide binding] 349520012958 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 349520012959 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 349520012960 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 349520012961 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 349520012962 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 349520012963 RPB10 interaction site [polypeptide binding]; other site 349520012964 RPB1 interaction site [polypeptide binding]; other site 349520012965 RPB11 interaction site [polypeptide binding]; other site 349520012966 RPB3 interaction site [polypeptide binding]; other site 349520012967 RPB12 interaction site [polypeptide binding]; other site 349520012968 Methyltransferase domain; Region: Methyltransf_31; pfam13847 349520012969 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 349520012970 S-adenosylmethionine binding site [chemical binding]; other site 349520012971 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 349520012972 core dimer interface [polypeptide binding]; other site 349520012973 peripheral dimer interface [polypeptide binding]; other site 349520012974 L10 interface [polypeptide binding]; other site 349520012975 L11 interface [polypeptide binding]; other site 349520012976 putative EF-Tu interaction site [polypeptide binding]; other site 349520012977 putative EF-G interaction site [polypeptide binding]; other site 349520012978 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 349520012979 23S rRNA interface [nucleotide binding]; other site 349520012980 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 349520012981 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 349520012982 mRNA/rRNA interface [nucleotide binding]; other site 349520012983 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 349520012984 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 349520012985 23S rRNA interface [nucleotide binding]; other site 349520012986 L7/L12 interface [polypeptide binding]; other site 349520012987 putative thiostrepton binding site; other site 349520012988 L25 interface [polypeptide binding]; other site 349520012989 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 349520012990 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 349520012991 putative homodimer interface [polypeptide binding]; other site 349520012992 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 349520012993 heterodimer interface [polypeptide binding]; other site 349520012994 homodimer interface [polypeptide binding]; other site 349520012995 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 349520012996 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 349520012997 RNA polymerase factor sigma-70; Validated; Region: PRK08295 349520012998 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349520012999 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 349520013000 YacP-like NYN domain; Region: NYN_YacP; pfam05991 349520013001 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 349520013002 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 349520013003 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 349520013004 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 349520013005 active site 349520013006 metal binding site [ion binding]; metal-binding site 349520013007 dimerization interface [polypeptide binding]; other site 349520013008 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 349520013009 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 349520013010 active site 349520013011 HIGH motif; other site 349520013012 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 349520013013 KMSKS motif; other site 349520013014 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 349520013015 tRNA binding surface [nucleotide binding]; other site 349520013016 anticodon binding site; other site 349520013017 serine O-acetyltransferase; Region: cysE; TIGR01172 349520013018 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 349520013019 trimer interface [polypeptide binding]; other site 349520013020 active site 349520013021 substrate binding site [chemical binding]; other site 349520013022 CoA binding site [chemical binding]; other site 349520013023 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 349520013024 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 349520013025 HIGH motif; other site 349520013026 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 349520013027 active site 349520013028 KMSKS motif; other site 349520013029 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 349520013030 homotrimer interaction site [polypeptide binding]; other site 349520013031 zinc binding site [ion binding]; other site 349520013032 CDP-binding sites; other site 349520013033 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 349520013034 substrate binding site; other site 349520013035 dimer interface; other site 349520013036 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 349520013037 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 349520013038 putative active site [active] 349520013039 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 349520013040 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 349520013041 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 349520013042 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 349520013043 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 349520013044 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 349520013045 DNA repair protein RadA; Provisional; Region: PRK11823 349520013046 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 349520013047 Walker A motif/ATP binding site; other site 349520013048 ATP binding site [chemical binding]; other site 349520013049 Walker B motif; other site 349520013050 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 349520013051 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 349520013052 Clp amino terminal domain; Region: Clp_N; pfam02861 349520013053 Clp amino terminal domain; Region: Clp_N; pfam02861 349520013054 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 349520013055 Walker A motif; other site 349520013056 ATP binding site [chemical binding]; other site 349520013057 Walker B motif; other site 349520013058 arginine finger; other site 349520013059 UvrB/uvrC motif; Region: UVR; pfam02151 349520013060 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 349520013061 Walker A motif; other site 349520013062 ATP binding site [chemical binding]; other site 349520013063 Walker B motif; other site 349520013064 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 349520013065 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 349520013066 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 349520013067 ADP binding site [chemical binding]; other site 349520013068 phosphagen binding site; other site 349520013069 substrate specificity loop; other site 349520013070 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 349520013071 UvrB/uvrC motif; Region: UVR; pfam02151 349520013072 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 349520013073 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 349520013074 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 349520013075 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 349520013076 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 349520013077 nucleotide binding pocket [chemical binding]; other site 349520013078 K-X-D-G motif; other site 349520013079 catalytic site [active] 349520013080 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 349520013081 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 349520013082 Dimer interface [polypeptide binding]; other site 349520013083 BRCT sequence motif; other site 349520013084 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 349520013085 Part of AAA domain; Region: AAA_19; pfam13245 349520013086 Family description; Region: UvrD_C_2; pfam13538 349520013087 PcrB family; Region: PcrB; pfam01884 349520013088 PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between...; Region: PcrB_like; cd02812 349520013089 substrate binding site [chemical binding]; other site 349520013090 putative active site [active] 349520013091 dimer interface [polypeptide binding]; other site 349520013092 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 349520013093 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases; Region: PI-PLCc_GDPD_SF_unchar1; cd08583 349520013094 putative active site [active] 349520013095 catalytic site [active] 349520013096 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 349520013097 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 349520013098 Bacterial sugar transferase; Region: Bac_transf; pfam02397 349520013099 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 349520013100 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 349520013101 Probable Catalytic site; other site 349520013102 metal-binding site 349520013103 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 349520013104 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 349520013105 Probable Catalytic site; other site 349520013106 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 349520013107 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 349520013108 NADP binding site [chemical binding]; other site 349520013109 active site 349520013110 putative substrate binding site [chemical binding]; other site 349520013111 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 349520013112 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 349520013113 NAD binding site [chemical binding]; other site 349520013114 substrate binding site [chemical binding]; other site 349520013115 homodimer interface [polypeptide binding]; other site 349520013116 active site 349520013117 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 349520013118 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 349520013119 Acyltransferase family; Region: Acyl_transf_3; pfam01757 349520013120 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 349520013121 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 349520013122 substrate binding site; other site 349520013123 tetramer interface; other site 349520013124 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 349520013125 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 349520013126 active site 349520013127 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 349520013128 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 349520013129 active site 349520013130 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349520013131 active site 349520013132 HIGH motif; other site 349520013133 nucleotide binding site [chemical binding]; other site 349520013134 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 349520013135 active site 349520013136 dimer interface [polypeptide binding]; other site 349520013137 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 349520013138 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 349520013139 Ligand Binding Site [chemical binding]; other site 349520013140 Molecular Tunnel; other site 349520013141 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 349520013142 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 349520013143 Walker A/P-loop; other site 349520013144 ATP binding site [chemical binding]; other site 349520013145 Q-loop/lid; other site 349520013146 ABC transporter signature motif; other site 349520013147 Walker B; other site 349520013148 D-loop; other site 349520013149 H-loop/switch region; other site 349520013150 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 349520013151 putative carbohydrate binding site [chemical binding]; other site 349520013152 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 349520013153 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 349520013154 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 349520013155 O-Antigen ligase; Region: Wzy_C; pfam04932 349520013156 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 349520013157 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 349520013158 active site 349520013159 tetramer interface; other site 349520013160 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 349520013161 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 349520013162 Ligand binding site; other site 349520013163 Putative Catalytic site; other site 349520013164 DXD motif; other site 349520013165 Predicted membrane protein [Function unknown]; Region: COG2246 349520013166 GtrA-like protein; Region: GtrA; pfam04138 349520013167 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 349520013168 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 349520013169 Peptidase family U32; Region: Peptidase_U32; pfam01136 349520013170 Collagenase; Region: DUF3656; pfam12392 349520013171 Peptidase family U32; Region: Peptidase_U32; cl03113 349520013172 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520013173 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 349520013174 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 349520013175 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 349520013176 ferredoxin-nitrite reductase; Reviewed; Region: nirA; PRK09566 349520013177 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 349520013178 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 349520013179 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 349520013180 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 349520013181 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 349520013182 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 349520013183 excinuclease ABC subunit B; Provisional; Region: PRK05298 349520013184 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 349520013185 ATP binding site [chemical binding]; other site 349520013186 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 349520013187 nucleotide binding region [chemical binding]; other site 349520013188 ATP-binding site [chemical binding]; other site 349520013189 Ultra-violet resistance protein B; Region: UvrB; pfam12344 349520013190 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 349520013191 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 349520013192 flagellar motor protein MotS; Reviewed; Region: PRK06925 349520013193 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 349520013194 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349520013195 ligand binding site [chemical binding]; other site 349520013196 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 349520013197 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 349520013198 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 349520013199 non-specific DNA binding site [nucleotide binding]; other site 349520013200 salt bridge; other site 349520013201 sequence-specific DNA binding site [nucleotide binding]; other site 349520013202 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 349520013203 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 349520013204 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 349520013205 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349520013206 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 349520013207 DNA binding residues [nucleotide binding] 349520013208 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 349520013209 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 349520013210 Glycoside hydrolase family 44; Region: Glyco_hydro_44; pfam12891 349520013211 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 349520013212 Interdomain contacts; other site 349520013213 Cytokine receptor motif; other site 349520013214 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 349520013215 putative metal binding site [ion binding]; other site 349520013216 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 349520013217 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 349520013218 Interdomain contacts; other site 349520013219 Cellulose binding domain; Region: CBM_3; pfam00942 349520013220 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 349520013221 S-adenosylmethionine binding site [chemical binding]; other site 349520013222 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 349520013223 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 349520013224 C-terminal peptidase (prc); Region: prc; TIGR00225 349520013225 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 349520013226 protein binding site [polypeptide binding]; other site 349520013227 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 349520013228 Catalytic dyad [active] 349520013229 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 349520013230 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 349520013231 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 349520013232 Peptidase family M23; Region: Peptidase_M23; pfam01551 349520013233 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 349520013234 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 349520013235 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 349520013236 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520013237 Walker A/P-loop; other site 349520013238 ATP binding site [chemical binding]; other site 349520013239 Q-loop/lid; other site 349520013240 ABC transporter signature motif; other site 349520013241 Walker B; other site 349520013242 D-loop; other site 349520013243 H-loop/switch region; other site 349520013244 VanW like protein; Region: VanW; pfam04294 349520013245 G5 domain; Region: G5; pfam07501 349520013246 S-layer homology domain; Region: SLH; pfam00395 349520013247 S-layer homology domain; Region: SLH; pfam00395 349520013248 S-formylglutathione hydrolase; Region: PLN02442 349520013249 Putative esterase; Region: Esterase; pfam00756 349520013250 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 349520013251 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 349520013252 Predicted membrane protein [Function unknown]; Region: COG2246 349520013253 GtrA-like protein; Region: GtrA; pfam04138 349520013254 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 349520013255 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 349520013256 Ligand binding site; other site 349520013257 Putative Catalytic site; other site 349520013258 DXD motif; other site 349520013259 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 349520013260 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 349520013261 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 349520013262 DXD motif; other site 349520013263 argininosuccinate lyase; Provisional; Region: PRK00855 349520013264 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 349520013265 active sites [active] 349520013266 tetramer interface [polypeptide binding]; other site 349520013267 argininosuccinate synthase; Provisional; Region: PRK13820 349520013268 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 349520013269 ANP binding site [chemical binding]; other site 349520013270 Substrate Binding Site II [chemical binding]; other site 349520013271 Substrate Binding Site I [chemical binding]; other site 349520013272 ornithine carbamoyltransferase; Provisional; Region: PRK00779 349520013273 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 349520013274 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 349520013275 acetylornithine aminotransferase; Provisional; Region: PRK02627 349520013276 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 349520013277 inhibitor-cofactor binding pocket; inhibition site 349520013278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520013279 catalytic residue [active] 349520013280 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 349520013281 nucleotide binding site [chemical binding]; other site 349520013282 N-acetyl-L-glutamate binding site [chemical binding]; other site 349520013283 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 349520013284 heterotetramer interface [polypeptide binding]; other site 349520013285 active site pocket [active] 349520013286 cleavage site 349520013287 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 349520013288 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 349520013289 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 349520013290 Uncharacterized conserved protein [Function unknown]; Region: COG1284 349520013291 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 349520013292 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 349520013293 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 349520013294 peptide chain release factor 2; Provisional; Region: PRK06746 349520013295 PCRF domain; Region: PCRF; pfam03462 349520013296 RF-1 domain; Region: RF-1; pfam00472 349520013297 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 349520013298 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 349520013299 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 349520013300 nucleotide binding region [chemical binding]; other site 349520013301 ATP-binding site [chemical binding]; other site 349520013302 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 349520013303 30S subunit binding site; other site 349520013304 conserved repeat domain; Region: B_ant_repeat; TIGR01451 349520013305 conserved repeat domain; Region: B_ant_repeat; TIGR01451 349520013306 conserved repeat domain; Region: B_ant_repeat; TIGR01451 349520013307 conserved repeat domain; Region: B_ant_repeat; TIGR01451 349520013308 conserved repeat domain; Region: B_ant_repeat; TIGR01451 349520013309 conserved repeat domain; Region: B_ant_repeat; TIGR01451 349520013310 conserved repeat domain; Region: B_ant_repeat; TIGR01451 349520013311 conserved repeat domain; Region: B_ant_repeat; TIGR01451 349520013312 conserved repeat domain; Region: B_ant_repeat; TIGR01451 349520013313 conserved repeat domain; Region: B_ant_repeat; TIGR01451 349520013314 conserved repeat domain; Region: B_ant_repeat; TIGR01451 349520013315 conserved repeat domain; Region: B_ant_repeat; TIGR01451 349520013316 conserved repeat domain; Region: B_ant_repeat; TIGR01451 349520013317 conserved repeat domain; Region: B_ant_repeat; TIGR01451 349520013318 Domain of unknown function DUF11; Region: DUF11; cl17728 349520013319 Domain of unknown function DUF11; Region: DUF11; cl17728 349520013320 conserved repeat domain; Region: B_ant_repeat; TIGR01451 349520013321 Domain of unknown function DUF11; Region: DUF11; cl17728 349520013322 conserved repeat domain; Region: B_ant_repeat; TIGR01451 349520013323 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 349520013324 DNA-binding site [nucleotide binding]; DNA binding site 349520013325 RNA-binding motif; other site 349520013326 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 349520013327 active site 349520013328 metal-binding site 349520013329 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 349520013330 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349520013331 catalytic residue [active] 349520013332 Methyltransferase domain; Region: Methyltransf_23; pfam13489 349520013333 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 349520013334 S-adenosylmethionine binding site [chemical binding]; other site 349520013335 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 349520013336 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 349520013337 PYR/PP interface [polypeptide binding]; other site 349520013338 dimer interface [polypeptide binding]; other site 349520013339 TPP binding site [chemical binding]; other site 349520013340 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 349520013341 TPP-binding site [chemical binding]; other site 349520013342 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 349520013343 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 349520013344 tetramer interface [polypeptide binding]; other site 349520013345 active site 349520013346 Mg2+/Mn2+ binding site [ion binding]; other site 349520013347 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 349520013348 active site 349520013349 metal-binding site 349520013350 TPR repeat; Region: TPR_11; pfam13414 349520013351 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 349520013352 binding surface 349520013353 TPR motif; other site 349520013354 Sulfatase; Region: Sulfatase; cl17466 349520013355 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 349520013356 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 349520013357 inhibitor-cofactor binding pocket; inhibition site 349520013358 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520013359 catalytic residue [active] 349520013360 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 349520013361 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 349520013362 putative trimer interface [polypeptide binding]; other site 349520013363 putative CoA binding site [chemical binding]; other site 349520013364 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 349520013365 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 349520013366 active site 349520013367 homodimer interface [polypeptide binding]; other site 349520013368 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 349520013369 NeuB family; Region: NeuB; pfam03102 349520013370 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 349520013371 NeuB binding interface [polypeptide binding]; other site 349520013372 putative substrate binding site [chemical binding]; other site 349520013373 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 349520013374 ligand binding site; other site 349520013375 tetramer interface; other site 349520013376 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 349520013377 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 349520013378 NAD(P) binding site [chemical binding]; other site 349520013379 homodimer interface [polypeptide binding]; other site 349520013380 substrate binding site [chemical binding]; other site 349520013381 active site 349520013382 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 349520013383 Flagellar protein FliS; Region: FliS; cl00654 349520013384 flagellar capping protein; Validated; Region: fliD; PRK07737 349520013385 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 349520013386 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 349520013387 FlaG protein; Region: FlaG; pfam03646 349520013388 flagellin; Provisional; Region: PRK12804 349520013389 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 349520013390 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 349520013391 Global regulator protein family; Region: CsrA; pfam02599 349520013392 FliW protein; Region: FliW; cl00740 349520013393 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 349520013394 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 349520013395 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 349520013396 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 349520013397 FlgN protein; Region: FlgN; pfam05130 349520013398 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 349520013399 flagellar operon protein TIGR03826; Region: YvyF 349520013400 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349520013401 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 349520013402 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349520013403 active site 349520013404 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 349520013405 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 349520013406 ATP binding site [chemical binding]; other site 349520013407 putative Mg++ binding site [ion binding]; other site 349520013408 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 349520013409 nucleotide binding region [chemical binding]; other site 349520013410 ATP-binding site [chemical binding]; other site 349520013411 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 349520013412 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 349520013413 active site 349520013414 phosphorylation site [posttranslational modification] 349520013415 intermolecular recognition site; other site 349520013416 dimerization interface [polypeptide binding]; other site 349520013417 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 349520013418 DNA binding residues [nucleotide binding] 349520013419 dimerization interface [polypeptide binding]; other site 349520013420 Sensor protein DegS; Region: DegS; pfam05384 349520013421 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 349520013422 Histidine kinase; Region: HisKA_3; pfam07730 349520013423 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 349520013424 ATP binding site [chemical binding]; other site 349520013425 Mg2+ binding site [ion binding]; other site 349520013426 G-X-G motif; other site 349520013427 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 349520013428 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 349520013429 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520013430 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349520013431 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 349520013432 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349520013433 HlyD family secretion protein; Region: HlyD_3; pfam13437 349520013434 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 349520013435 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520013436 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520013437 S-adenosylmethionine synthetase; Validated; Region: PRK05250 349520013438 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 349520013439 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 349520013440 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 349520013441 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 349520013442 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520013443 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 349520013444 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520013445 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349520013446 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 349520013447 HlyD family secretion protein; Region: HlyD_3; pfam13437 349520013448 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 349520013449 S-layer homology domain; Region: SLH; pfam00395 349520013450 S-layer homology domain; Region: SLH; pfam00395 349520013451 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 349520013452 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 349520013453 Mg++ binding site [ion binding]; other site 349520013454 putative catalytic motif [active] 349520013455 substrate binding site [chemical binding]; other site 349520013456 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 349520013457 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 349520013458 polysaccharide pyruvyl transferase CsaB; Region: S_layer_CsaB; TIGR03609 349520013459 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 349520013460 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 349520013461 active site 349520013462 substrate binding site [chemical binding]; other site 349520013463 metal binding site [ion binding]; metal-binding site 349520013464 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 349520013465 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 349520013466 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 349520013467 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 349520013468 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 349520013469 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 349520013470 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 349520013471 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 349520013472 rod shape-determining protein Mbl; Provisional; Region: PRK13928 349520013473 MreB and similar proteins; Region: MreB_like; cd10225 349520013474 nucleotide binding site [chemical binding]; other site 349520013475 Mg binding site [ion binding]; other site 349520013476 putative protofilament interaction site [polypeptide binding]; other site 349520013477 RodZ interaction site [polypeptide binding]; other site 349520013478 Stage III sporulation protein D; Region: SpoIIID; pfam12116 349520013479 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 349520013480 Peptidase family M23; Region: Peptidase_M23; pfam01551 349520013481 Stage II sporulation protein; Region: SpoIID; pfam08486 349520013482 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 349520013483 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 349520013484 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 349520013485 hinge; other site 349520013486 active site 349520013487 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 349520013488 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 349520013489 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 349520013490 gamma subunit interface [polypeptide binding]; other site 349520013491 epsilon subunit interface [polypeptide binding]; other site 349520013492 LBP interface [polypeptide binding]; other site 349520013493 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 349520013494 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 349520013495 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 349520013496 alpha subunit interaction interface [polypeptide binding]; other site 349520013497 Walker A motif; other site 349520013498 ATP binding site [chemical binding]; other site 349520013499 Walker B motif; other site 349520013500 inhibitor binding site; inhibition site 349520013501 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 349520013502 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 349520013503 core domain interface [polypeptide binding]; other site 349520013504 delta subunit interface [polypeptide binding]; other site 349520013505 epsilon subunit interface [polypeptide binding]; other site 349520013506 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 349520013507 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 349520013508 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 349520013509 beta subunit interaction interface [polypeptide binding]; other site 349520013510 Walker A motif; other site 349520013511 ATP binding site [chemical binding]; other site 349520013512 Walker B motif; other site 349520013513 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 349520013514 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 349520013515 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 349520013516 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 349520013517 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 349520013518 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 349520013519 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 349520013520 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 349520013521 ATP synthase I chain; Region: ATP_synt_I; pfam03899 349520013522 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 349520013523 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 349520013524 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 349520013525 active site 349520013526 homodimer interface [polypeptide binding]; other site 349520013527 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349520013528 active site 349520013529 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520013530 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520013531 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520013532 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520013533 dimer interface [polypeptide binding]; other site 349520013534 conserved gate region; other site 349520013535 putative PBP binding loops; other site 349520013536 ABC-ATPase subunit interface; other site 349520013537 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 349520013538 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520013539 dimer interface [polypeptide binding]; other site 349520013540 conserved gate region; other site 349520013541 putative PBP binding loops; other site 349520013542 ABC-ATPase subunit interface; other site 349520013543 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 349520013544 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 349520013545 dimer interface [polypeptide binding]; other site 349520013546 active site 349520013547 glycine-pyridoxal phosphate binding site [chemical binding]; other site 349520013548 folate binding site [chemical binding]; other site 349520013549 hypothetical protein; Provisional; Region: PRK13690 349520013550 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 349520013551 Low molecular weight phosphatase family; Region: LMWPc; cd00115 349520013552 active site 349520013553 Domain of unknown function DUF; Region: DUF204; pfam02659 349520013554 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 349520013555 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 349520013556 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 349520013557 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 349520013558 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 349520013559 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 349520013560 S-adenosylmethionine binding site [chemical binding]; other site 349520013561 peptide chain release factor 1; Validated; Region: prfA; PRK00591 349520013562 This domain is found in peptide chain release factors; Region: PCRF; smart00937 349520013563 RF-1 domain; Region: RF-1; pfam00472 349520013564 GTP-binding protein YchF; Reviewed; Region: PRK09601 349520013565 YchF GTPase; Region: YchF; cd01900 349520013566 G1 box; other site 349520013567 GTP/Mg2+ binding site [chemical binding]; other site 349520013568 Switch I region; other site 349520013569 G2 box; other site 349520013570 Switch II region; other site 349520013571 G3 box; other site 349520013572 G4 box; other site 349520013573 G5 box; other site 349520013574 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 349520013575 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 349520013576 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520013577 Coenzyme A binding pocket [chemical binding]; other site 349520013578 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 349520013579 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 349520013580 homotetramer interface [polypeptide binding]; other site 349520013581 FMN binding site [chemical binding]; other site 349520013582 homodimer contacts [polypeptide binding]; other site 349520013583 putative active site [active] 349520013584 putative substrate binding site [chemical binding]; other site 349520013585 Protein of unknown function, DUF606; Region: DUF606; pfam04657 349520013586 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 349520013587 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 349520013588 ligand binding site [chemical binding]; other site 349520013589 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 349520013590 Protein of unknown function, DUF606; Region: DUF606; pfam04657 349520013591 Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_1; cd09129 349520013592 putative active site [active] 349520013593 putative catalytic site [active] 349520013594 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_2; cd09130 349520013595 PLD-like domain; Region: PLDc_2; pfam13091 349520013596 putative active site [active] 349520013597 putative catalytic site [active] 349520013598 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 349520013599 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 349520013600 putative active site [active] 349520013601 catalytic site [active] 349520013602 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 349520013603 putative active site [active] 349520013604 catalytic site [active] 349520013605 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520013606 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520013607 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 349520013608 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 349520013609 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 349520013610 putative substrate binding site [chemical binding]; other site 349520013611 putative ATP binding site [chemical binding]; other site 349520013612 LysE type translocator; Region: LysE; cl00565 349520013613 LysE type translocator; Region: LysE; cl00565 349520013614 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 349520013615 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 349520013616 GTP binding site; other site 349520013617 phenyl proprionate permease family protein; Region: 2A0127; TIGR00902 349520013618 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 349520013619 putative substrate translocation pore; other site 349520013620 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 349520013621 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349520013622 active site 349520013623 HIGH motif; other site 349520013624 nucleotide binding site [chemical binding]; other site 349520013625 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 349520013626 KMSKS motif; other site 349520013627 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 349520013628 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 349520013629 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 349520013630 putative acetyltransferase; Provisional; Region: PRK03624 349520013631 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520013632 Coenzyme A binding pocket [chemical binding]; other site 349520013633 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 349520013634 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349520013635 putative substrate translocation pore; other site 349520013636 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 349520013637 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 349520013638 putative [4Fe-4S] binding site [ion binding]; other site 349520013639 putative molybdopterin cofactor binding site [chemical binding]; other site 349520013640 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 349520013641 putative molybdopterin cofactor binding site; other site 349520013642 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 349520013643 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 349520013644 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349520013645 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349520013646 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 349520013647 catalytic residues [active] 349520013648 dimer interface [polypeptide binding]; other site 349520013649 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 349520013650 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349520013651 Walker A/P-loop; other site 349520013652 ATP binding site [chemical binding]; other site 349520013653 Q-loop/lid; other site 349520013654 ABC transporter signature motif; other site 349520013655 Walker B; other site 349520013656 D-loop; other site 349520013657 H-loop/switch region; other site 349520013658 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 349520013659 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 349520013660 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 349520013661 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 349520013662 Domain of unknown function DUF20; Region: UPF0118; pfam01594 349520013663 Transcriptional regulator [Transcription]; Region: LytR; COG1316 349520013664 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 349520013665 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 349520013666 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 349520013667 DEAD-like helicases superfamily; Region: DEXDc; smart00487 349520013668 ATP binding site [chemical binding]; other site 349520013669 Mg++ binding site [ion binding]; other site 349520013670 motif III; other site 349520013671 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 349520013672 nucleotide binding region [chemical binding]; other site 349520013673 ATP-binding site [chemical binding]; other site 349520013674 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 349520013675 Transmembrane protein 55A; Region: Tmemb_55A; pfam09788 349520013676 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 349520013677 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 349520013678 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520013679 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520013680 WHG domain; Region: WHG; pfam13305 349520013681 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 349520013682 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349520013683 Predicted peptidase [General function prediction only]; Region: COG4099 349520013684 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 349520013685 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 349520013686 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 349520013687 non-specific DNA binding site [nucleotide binding]; other site 349520013688 salt bridge; other site 349520013689 sequence-specific DNA binding site [nucleotide binding]; other site 349520013690 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 349520013691 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 349520013692 substrate binding pocket [chemical binding]; other site 349520013693 membrane-bound complex binding site; other site 349520013694 hinge residues; other site 349520013695 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349520013696 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 349520013697 Walker A/P-loop; other site 349520013698 ATP binding site [chemical binding]; other site 349520013699 Q-loop/lid; other site 349520013700 ABC transporter signature motif; other site 349520013701 Walker B; other site 349520013702 D-loop; other site 349520013703 H-loop/switch region; other site 349520013704 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520013705 dimer interface [polypeptide binding]; other site 349520013706 conserved gate region; other site 349520013707 ABC-ATPase subunit interface; other site 349520013708 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520013709 dimer interface [polypeptide binding]; other site 349520013710 conserved gate region; other site 349520013711 putative PBP binding loops; other site 349520013712 ABC-ATPase subunit interface; other site 349520013713 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 349520013714 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 349520013715 Sulfate transporter family; Region: Sulfate_transp; pfam00916 349520013716 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 349520013717 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 349520013718 ABC1 family; Region: ABC1; pfam03109 349520013719 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 349520013720 active site 349520013721 ATP binding site [chemical binding]; other site 349520013722 Uncharacterized conserved protein [Function unknown]; Region: COG3937 349520013723 Trehalose utilisation; Region: ThuA; pfam06283 349520013724 conserved cys residue [active] 349520013725 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 349520013726 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 349520013727 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 349520013728 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 349520013729 catalytic triad [active] 349520013730 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 349520013731 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 349520013732 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 349520013733 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 349520013734 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 349520013735 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 349520013736 active site 349520013737 SAM binding site [chemical binding]; other site 349520013738 homodimer interface [polypeptide binding]; other site 349520013739 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 349520013740 active site 349520013741 SAM binding site [chemical binding]; other site 349520013742 homodimer interface [polypeptide binding]; other site 349520013743 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 349520013744 active site 349520013745 putative homodimer interface [polypeptide binding]; other site 349520013746 SAM binding site [chemical binding]; other site 349520013747 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 349520013748 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 349520013749 S-adenosylmethionine binding site [chemical binding]; other site 349520013750 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 349520013751 Precorrin-8X methylmutase; Region: CbiC; pfam02570 349520013752 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 349520013753 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 349520013754 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 349520013755 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 349520013756 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 349520013757 putative active site [active] 349520013758 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 349520013759 putative active site [active] 349520013760 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 349520013761 active site 349520013762 SAM binding site [chemical binding]; other site 349520013763 homodimer interface [polypeptide binding]; other site 349520013764 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 349520013765 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 349520013766 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 349520013767 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 349520013768 active site 349520013769 Spore germination protein; Region: Spore_permease; cl17796 349520013770 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 349520013771 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 349520013772 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 349520013773 Pirin-related protein [General function prediction only]; Region: COG1741 349520013774 Pirin; Region: Pirin; pfam02678 349520013775 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 349520013776 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520013777 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520013778 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 349520013779 putative dimerization interface [polypeptide binding]; other site 349520013780 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 349520013781 EamA-like transporter family; Region: EamA; pfam00892 349520013782 Cache domain; Region: Cache_1; pfam02743 349520013783 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 349520013784 dimerization interface [polypeptide binding]; other site 349520013785 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349520013786 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520013787 dimer interface [polypeptide binding]; other site 349520013788 putative CheW interface [polypeptide binding]; other site 349520013789 Predicted membrane protein [Function unknown]; Region: COG2259 349520013790 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 349520013791 Penicillinase repressor; Region: Pencillinase_R; pfam03965 349520013792 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520013793 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 349520013794 DNA binding site [nucleotide binding] 349520013795 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 349520013796 metal binding site 2 [ion binding]; metal-binding site 349520013797 putative DNA binding helix; other site 349520013798 metal binding site 1 [ion binding]; metal-binding site 349520013799 dimer interface [polypeptide binding]; other site 349520013800 structural Zn2+ binding site [ion binding]; other site 349520013801 Spore germination protein; Region: Spore_permease; cl17796 349520013802 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 349520013803 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 349520013804 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 349520013805 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 349520013806 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 349520013807 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349520013808 metal binding site [ion binding]; metal-binding site 349520013809 active site 349520013810 I-site; other site 349520013811 Transcriptional regulator; Region: Rrf2; pfam02082 349520013812 Rrf2 family protein; Region: rrf2_super; TIGR00738 349520013813 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 349520013814 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 349520013815 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 349520013816 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 349520013817 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 349520013818 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK14704 349520013819 Class III ribonucleotide reductase; Region: RNR_III; cd01675 349520013820 effector binding site; other site 349520013821 active site 349520013822 Zn binding site [ion binding]; other site 349520013823 glycine loop; other site 349520013824 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 349520013825 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 349520013826 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 349520013827 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 349520013828 THF binding site; other site 349520013829 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 349520013830 substrate binding site [chemical binding]; other site 349520013831 THF binding site; other site 349520013832 zinc-binding site [ion binding]; other site 349520013833 Predicted transcriptional regulators [Transcription]; Region: COG1695 349520013834 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 349520013835 Protein of unknown function (DUF1700); Region: DUF1700; pfam08006 349520013836 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 349520013837 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 349520013838 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07666 349520013839 classical (c) SDRs; Region: SDR_c; cd05233 349520013840 NAD(P) binding site [chemical binding]; other site 349520013841 active site 349520013842 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 349520013843 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 349520013844 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; cl17220 349520013845 Nitric oxide synthase (NOS) produces nitric oxide (NO) by catalyzing a five-electron heme-based oxidation of a guanidine nitrogen of L-arginine to L-citrulline via two successive monooxygenation reactions producing N(omega)-hydroxy-L-arginine (NHA) as an...; Region: NOS_oxygenase; cd00575 349520013846 active site 349520013847 dimer interface [polypeptide binding]; other site 349520013848 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 349520013849 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 349520013850 dimerization interface [polypeptide binding]; other site 349520013851 DPS ferroxidase diiron center [ion binding]; other site 349520013852 ion pore; other site 349520013853 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 349520013854 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 349520013855 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 349520013856 active site 349520013857 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 349520013858 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349520013859 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520013860 Walker A/P-loop; other site 349520013861 ATP binding site [chemical binding]; other site 349520013862 Q-loop/lid; other site 349520013863 ABC transporter signature motif; other site 349520013864 Walker B; other site 349520013865 D-loop; other site 349520013866 H-loop/switch region; other site 349520013867 TOBE domain; Region: TOBE_2; pfam08402 349520013868 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 349520013869 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520013870 dimer interface [polypeptide binding]; other site 349520013871 conserved gate region; other site 349520013872 putative PBP binding loops; other site 349520013873 ABC-ATPase subunit interface; other site 349520013874 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 349520013875 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520013876 dimer interface [polypeptide binding]; other site 349520013877 conserved gate region; other site 349520013878 putative PBP binding loops; other site 349520013879 ABC-ATPase subunit interface; other site 349520013880 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 349520013881 active site 349520013882 tetramer interface [polypeptide binding]; other site 349520013883 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 349520013884 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 349520013885 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 349520013886 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; cd00741 349520013887 nucleophilic elbow; other site 349520013888 nucleophilic elbow; other site 349520013889 catalytic triad; other site 349520013890 catalytic triad; other site 349520013891 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 349520013892 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 349520013893 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 349520013894 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 349520013895 sugar binding site [chemical binding]; other site 349520013896 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 349520013897 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 349520013898 GAF domain; Region: GAF_3; pfam13492 349520013899 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520013900 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 349520013901 ATP binding site [chemical binding]; other site 349520013902 Mg2+ binding site [ion binding]; other site 349520013903 G-X-G motif; other site 349520013904 nuc_hydro_ TvIAG: Nucleoside hydrolases similar to the Inosine-adenosine-guanosine-preferring nucleoside hydrolase from Trypanosoma vivax. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base; Region: nuc_hydro_TvIAG; cd02647 349520013905 active site 349520013906 dimerization interface [polypeptide binding]; other site 349520013907 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 349520013908 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 349520013909 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 349520013910 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 349520013911 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520013912 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 349520013913 putative DNA binding site [nucleotide binding]; other site 349520013914 putative Zn2+ binding site [ion binding]; other site 349520013915 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 349520013916 DEAD_2; Region: DEAD_2; pfam06733 349520013917 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 349520013918 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 349520013919 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 349520013920 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 349520013921 metal binding site [ion binding]; metal-binding site 349520013922 active site 349520013923 I-site; other site 349520013924 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520013925 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520013926 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 349520013927 putative dimerization interface [polypeptide binding]; other site 349520013928 holin-like protein; Validated; Region: PRK01658 349520013929 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 349520013930 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 349520013931 glycerol kinase; Provisional; Region: glpK; PRK00047 349520013932 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 349520013933 N- and C-terminal domain interface [polypeptide binding]; other site 349520013934 active site 349520013935 MgATP binding site [chemical binding]; other site 349520013936 catalytic site [active] 349520013937 metal binding site [ion binding]; metal-binding site 349520013938 glycerol binding site [chemical binding]; other site 349520013939 homotetramer interface [polypeptide binding]; other site 349520013940 homodimer interface [polypeptide binding]; other site 349520013941 FBP binding site [chemical binding]; other site 349520013942 protein IIAGlc interface [polypeptide binding]; other site 349520013943 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 349520013944 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 349520013945 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 349520013946 substrate binding pocket [chemical binding]; other site 349520013947 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 349520013948 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 349520013949 NADH(P)-binding; Region: NAD_binding_10; pfam13460 349520013950 NAD binding site [chemical binding]; other site 349520013951 substrate binding site [chemical binding]; other site 349520013952 putative active site [active] 349520013953 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 349520013954 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 349520013955 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 349520013956 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 349520013957 H+ Antiporter protein; Region: 2A0121; TIGR00900 349520013958 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 349520013959 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520013960 DNA binding site [nucleotide binding] 349520013961 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 349520013962 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 349520013963 putative substrate translocation pore; other site 349520013964 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 349520013965 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 349520013966 NADP binding site [chemical binding]; other site 349520013967 homodimer interface [polypeptide binding]; other site 349520013968 active site 349520013969 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 349520013970 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 349520013971 active site 349520013972 intersubunit interface [polypeptide binding]; other site 349520013973 catalytic residue [active] 349520013974 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 349520013975 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 349520013976 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 349520013977 substrate binding site [chemical binding]; other site 349520013978 ATP binding site [chemical binding]; other site 349520013979 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520013980 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520013981 DNA binding site [nucleotide binding] 349520013982 domain linker motif; other site 349520013983 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 349520013984 putative dimerization interface [polypeptide binding]; other site 349520013985 putative ligand binding site [chemical binding]; other site 349520013986 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 349520013987 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 349520013988 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 349520013989 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 349520013990 NAD(P) binding site [chemical binding]; other site 349520013991 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 349520013992 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349520013993 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 349520013994 DNA binding residues [nucleotide binding] 349520013995 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 349520013996 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520013997 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520013998 putative PBP binding loops; other site 349520013999 dimer interface [polypeptide binding]; other site 349520014000 ABC-ATPase subunit interface; other site 349520014001 sulfate transport protein; Provisional; Region: cysT; CHL00187 349520014002 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520014003 dimer interface [polypeptide binding]; other site 349520014004 conserved gate region; other site 349520014005 putative PBP binding loops; other site 349520014006 ABC-ATPase subunit interface; other site 349520014007 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520014008 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520014009 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 349520014010 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 349520014011 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 349520014012 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520014013 Walker A/P-loop; other site 349520014014 ATP binding site [chemical binding]; other site 349520014015 Q-loop/lid; other site 349520014016 ABC transporter signature motif; other site 349520014017 Walker B; other site 349520014018 D-loop; other site 349520014019 H-loop/switch region; other site 349520014020 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 349520014021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520014022 Walker A/P-loop; other site 349520014023 ATP binding site [chemical binding]; other site 349520014024 Q-loop/lid; other site 349520014025 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349520014026 ABC transporter signature motif; other site 349520014027 Walker B; other site 349520014028 D-loop; other site 349520014029 ABC transporter; Region: ABC_tran_2; pfam12848 349520014030 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349520014031 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 349520014032 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 349520014033 putative substrate translocation pore; other site 349520014034 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 349520014035 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 349520014036 Domain of unknown function (DUF377); Region: DUF377; pfam04041 349520014037 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 349520014038 active site 349520014039 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520014040 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520014041 dimer interface [polypeptide binding]; other site 349520014042 conserved gate region; other site 349520014043 putative PBP binding loops; other site 349520014044 ABC-ATPase subunit interface; other site 349520014045 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520014046 dimer interface [polypeptide binding]; other site 349520014047 conserved gate region; other site 349520014048 putative PBP binding loops; other site 349520014049 ABC-ATPase subunit interface; other site 349520014050 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520014051 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520014052 dimerization interface [polypeptide binding]; other site 349520014053 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 349520014054 putative active cleft [active] 349520014055 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 349520014056 active site 349520014057 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520014058 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520014059 DNA binding site [nucleotide binding] 349520014060 domain linker motif; other site 349520014061 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 349520014062 hypothetical protein; Provisional; Region: PRK04164 349520014063 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 349520014064 CsbD-like; Region: CsbD; pfam05532 349520014065 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520014066 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520014067 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 349520014068 Uncharacterized conserved protein [Function unknown]; Region: COG2427 349520014069 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 349520014070 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 349520014071 active site 349520014072 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 349520014073 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 349520014074 active site 349520014075 Na/Ca binding site [ion binding]; other site 349520014076 catalytic site [active] 349520014077 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 349520014078 catalytic core [active] 349520014079 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 349520014080 Bax inhibitor 1 like; Region: BaxI_1; cl17691 349520014081 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 349520014082 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 349520014083 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 349520014084 DNA binding site [nucleotide binding] 349520014085 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 349520014086 putative dimerization interface [polypeptide binding]; other site 349520014087 putative ligand binding site [chemical binding]; other site 349520014088 peptidase T; Region: peptidase-T; TIGR01882 349520014089 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 349520014090 metal binding site [ion binding]; metal-binding site 349520014091 dimer interface [polypeptide binding]; other site 349520014092 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520014093 dimer interface [polypeptide binding]; other site 349520014094 putative CheW interface [polypeptide binding]; other site 349520014095 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 349520014096 active site 349520014097 dimer interface [polypeptide binding]; other site 349520014098 magnesium binding site [ion binding]; other site 349520014099 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 349520014100 Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with...; Region: SIS_PHI; cd05005 349520014101 tetramer interface [polypeptide binding]; other site 349520014102 active site 349520014103 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 349520014104 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520014105 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 349520014106 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 349520014107 HAMP domain; Region: HAMP; pfam00672 349520014108 Histidine kinase; Region: His_kinase; pfam06580 349520014109 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 349520014110 ATP binding site [chemical binding]; other site 349520014111 Mg2+ binding site [ion binding]; other site 349520014112 G-X-G motif; other site 349520014113 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 349520014114 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 349520014115 active site 349520014116 phosphorylation site [posttranslational modification] 349520014117 intermolecular recognition site; other site 349520014118 dimerization interface [polypeptide binding]; other site 349520014119 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520014120 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 349520014121 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 349520014122 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 349520014123 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 349520014124 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 349520014125 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349520014126 Rubredoxin [Energy production and conversion]; Region: COG1773 349520014127 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 349520014128 iron binding site [ion binding]; other site 349520014129 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349520014130 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 349520014131 ligand binding site [chemical binding]; other site 349520014132 flexible hinge region; other site 349520014133 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 349520014134 putative switch regulator; other site 349520014135 non-specific DNA interactions [nucleotide binding]; other site 349520014136 DNA binding site [nucleotide binding] 349520014137 sequence specific DNA binding site [nucleotide binding]; other site 349520014138 putative cAMP binding site [chemical binding]; other site 349520014139 Predicted integral membrane protein [Function unknown]; Region: COG5542 349520014140 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 349520014141 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 349520014142 NADH(P)-binding; Region: NAD_binding_10; pfam13460 349520014143 NAD(P) binding site [chemical binding]; other site 349520014144 putative active site [active] 349520014145 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520014146 WHG domain; Region: WHG; pfam13305 349520014147 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 349520014148 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 349520014149 Walker A/P-loop; other site 349520014150 ATP binding site [chemical binding]; other site 349520014151 Q-loop/lid; other site 349520014152 ABC transporter signature motif; other site 349520014153 Walker B; other site 349520014154 D-loop; other site 349520014155 H-loop/switch region; other site 349520014156 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 349520014157 General stress protein [General function prediction only]; Region: GsiB; COG3729 349520014158 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 349520014159 MjaII restriction endonuclease; Region: RE_MjaII; pfam09520 349520014160 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 349520014161 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 349520014162 cofactor binding site; other site 349520014163 DNA binding site [nucleotide binding] 349520014164 substrate interaction site [chemical binding]; other site 349520014165 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 349520014166 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 349520014167 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 349520014168 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; cl17220 349520014169 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 349520014170 Cytoskeletal adhesion; Region: Aida_C2; pfam14186 349520014171 Peptidases of the G1 family and homologs that might lack peptidase activity; Region: Peptidase_G1_like; cl03371 349520014172 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 349520014173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 349520014174 classical (c) SDRs; Region: SDR_c; cd05233 349520014175 short chain dehydrogenase; Provisional; Region: PRK07041 349520014176 NAD(P) binding site [chemical binding]; other site 349520014177 active site 349520014178 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 349520014179 Helix-turn-helix domain; Region: HTH_18; pfam12833 349520014180 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520014181 Glycosyl hydrolase family 52; Region: Glyco_hydro_52; pfam03512 349520014182 Alpha-glucuronidase [Carbohydrate transport and metabolism]; Region: AguA; COG3661 349520014183 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 349520014184 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 349520014185 Glycosyl hydrolase family 14; Region: Glyco_hydro_14; pfam01373 349520014186 Carbohydrate binding domain (family 25); Region: CBM_25; pfam03423 349520014187 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 349520014188 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 349520014189 active site 349520014190 catalytic site [active] 349520014191 Aamy_C domain; Region: Aamy_C; smart00632 349520014192 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 349520014193 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 349520014194 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 349520014195 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 349520014196 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 349520014197 Walker A/P-loop; other site 349520014198 ATP binding site [chemical binding]; other site 349520014199 Q-loop/lid; other site 349520014200 ABC transporter signature motif; other site 349520014201 Walker B; other site 349520014202 D-loop; other site 349520014203 H-loop/switch region; other site 349520014204 nif11-like peptide radical SAM maturase; Region: rSAM_nif11; TIGR04064 349520014205 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 349520014206 FeS/SAM binding site; other site 349520014207 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 349520014208 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349520014209 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349520014210 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349520014211 Walker A/P-loop; other site 349520014212 ATP binding site [chemical binding]; other site 349520014213 Q-loop/lid; other site 349520014214 ABC transporter signature motif; other site 349520014215 Walker B; other site 349520014216 D-loop; other site 349520014217 H-loop/switch region; other site 349520014218 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 349520014219 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 349520014220 active site 349520014221 FMN binding site [chemical binding]; other site 349520014222 substrate binding site [chemical binding]; other site 349520014223 homotetramer interface [polypeptide binding]; other site 349520014224 catalytic residue [active] 349520014225 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 349520014226 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 349520014227 Response regulator receiver domain; Region: Response_reg; pfam00072 349520014228 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 349520014229 active site 349520014230 phosphorylation site [posttranslational modification] 349520014231 intermolecular recognition site; other site 349520014232 dimerization interface [polypeptide binding]; other site 349520014233 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520014234 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520014235 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 349520014236 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 349520014237 dimerization interface [polypeptide binding]; other site 349520014238 Histidine kinase; Region: His_kinase; pfam06580 349520014239 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 349520014240 ATP binding site [chemical binding]; other site 349520014241 Mg2+ binding site [ion binding]; other site 349520014242 G-X-G motif; other site 349520014243 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 349520014244 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520014245 dimer interface [polypeptide binding]; other site 349520014246 conserved gate region; other site 349520014247 putative PBP binding loops; other site 349520014248 ABC-ATPase subunit interface; other site 349520014249 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 349520014250 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520014251 dimer interface [polypeptide binding]; other site 349520014252 conserved gate region; other site 349520014253 putative PBP binding loops; other site 349520014254 ABC-ATPase subunit interface; other site 349520014255 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 349520014256 dimerization interface [polypeptide binding]; other site 349520014257 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349520014258 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520014259 dimer interface [polypeptide binding]; other site 349520014260 putative CheW interface [polypeptide binding]; other site 349520014261 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 349520014262 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 349520014263 Catalytic site [active] 349520014264 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 349520014265 Right handed beta helix region; Region: Beta_helix; pfam13229 349520014266 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 349520014267 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 349520014268 putative substrate translocation pore; other site 349520014269 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 349520014270 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 349520014271 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 349520014272 NodB motif; other site 349520014273 active site 349520014274 catalytic site [active] 349520014275 Zn binding site [ion binding]; other site 349520014276 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 349520014277 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 349520014278 catalytic triad [active] 349520014279 catalytic triad [active] 349520014280 oxyanion hole [active] 349520014281 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 349520014282 putative substrate binding site 1 [chemical binding]; other site 349520014283 Na binding site 1 [ion binding]; other site 349520014284 putative substrate binding site 2 [chemical binding]; other site 349520014285 Na2 binding site [ion binding]; other site 349520014286 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 349520014287 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 349520014288 seryl-tRNA synthetase; Provisional; Region: PRK05431 349520014289 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 349520014290 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 349520014291 dimer interface [polypeptide binding]; other site 349520014292 active site 349520014293 motif 1; other site 349520014294 motif 2; other site 349520014295 motif 3; other site 349520014296 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 349520014297 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 349520014298 heme-binding site [chemical binding]; other site 349520014299 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 349520014300 FAD binding pocket [chemical binding]; other site 349520014301 FAD binding motif [chemical binding]; other site 349520014302 phosphate binding motif [ion binding]; other site 349520014303 beta-alpha-beta structure motif; other site 349520014304 NAD binding pocket [chemical binding]; other site 349520014305 Heme binding pocket [chemical binding]; other site 349520014306 Glycosyl hydrolase family 43; Region: GH43_6; cd08985 349520014307 active site 349520014308 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 349520014309 sugar binding site [chemical binding]; other site 349520014310 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 349520014311 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520014312 DNA-binding site [nucleotide binding]; DNA binding site 349520014313 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 349520014314 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 349520014315 beta-galactosidase; Region: BGL; TIGR03356 349520014316 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 349520014317 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 349520014318 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 349520014319 active site 349520014320 methionine cluster; other site 349520014321 phosphorylation site [posttranslational modification] 349520014322 metal binding site [ion binding]; metal-binding site 349520014323 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 349520014324 active site 349520014325 P-loop; other site 349520014326 phosphorylation site [posttranslational modification] 349520014327 KWG Leptospira; Region: KWG; pfam07656 349520014328 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 349520014329 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 349520014330 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 349520014331 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 349520014332 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 349520014333 non-specific DNA binding site [nucleotide binding]; other site 349520014334 salt bridge; other site 349520014335 sequence-specific DNA binding site [nucleotide binding]; other site 349520014336 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349520014337 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 349520014338 active site 349520014339 homodimer interface [polypeptide binding]; other site 349520014340 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349520014341 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 349520014342 Walker A/P-loop; other site 349520014343 ATP binding site [chemical binding]; other site 349520014344 Q-loop/lid; other site 349520014345 ABC transporter signature motif; other site 349520014346 Walker B; other site 349520014347 D-loop; other site 349520014348 H-loop/switch region; other site 349520014349 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520014350 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349520014351 dimer interface [polypeptide binding]; other site 349520014352 conserved gate region; other site 349520014353 putative PBP binding loops; other site 349520014354 ABC-ATPase subunit interface; other site 349520014355 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 349520014356 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349520014357 substrate binding pocket [chemical binding]; other site 349520014358 membrane-bound complex binding site; other site 349520014359 hinge residues; other site 349520014360 nickel import ATP-binding protein NikE; Region: nickel_nikE; TIGR02769 349520014361 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349520014362 Walker A/P-loop; other site 349520014363 ATP binding site [chemical binding]; other site 349520014364 Q-loop/lid; other site 349520014365 ABC transporter signature motif; other site 349520014366 Walker B; other site 349520014367 D-loop; other site 349520014368 H-loop/switch region; other site 349520014369 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349520014370 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 349520014371 Walker A/P-loop; other site 349520014372 ATP binding site [chemical binding]; other site 349520014373 Q-loop/lid; other site 349520014374 ABC transporter signature motif; other site 349520014375 Walker B; other site 349520014376 D-loop; other site 349520014377 H-loop/switch region; other site 349520014378 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 349520014379 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 349520014380 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520014381 dimer interface [polypeptide binding]; other site 349520014382 conserved gate region; other site 349520014383 putative PBP binding loops; other site 349520014384 ABC-ATPase subunit interface; other site 349520014385 nickel ABC transporter, permease subunit NikB; Region: nickel_nikB; TIGR02789 349520014386 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520014387 dimer interface [polypeptide binding]; other site 349520014388 conserved gate region; other site 349520014389 putative PBP binding loops; other site 349520014390 ABC-ATPase subunit interface; other site 349520014391 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 349520014392 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 349520014393 substrate binding site [chemical binding]; other site 349520014394 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 349520014395 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349520014396 Walker A/P-loop; other site 349520014397 ATP binding site [chemical binding]; other site 349520014398 Q-loop/lid; other site 349520014399 ABC transporter signature motif; other site 349520014400 Walker B; other site 349520014401 D-loop; other site 349520014402 H-loop/switch region; other site 349520014403 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349520014404 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 349520014405 Walker A/P-loop; other site 349520014406 ATP binding site [chemical binding]; other site 349520014407 Q-loop/lid; other site 349520014408 ABC transporter signature motif; other site 349520014409 Walker B; other site 349520014410 D-loop; other site 349520014411 H-loop/switch region; other site 349520014412 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520014413 dimer interface [polypeptide binding]; other site 349520014414 conserved gate region; other site 349520014415 putative PBP binding loops; other site 349520014416 ABC-ATPase subunit interface; other site 349520014417 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349520014418 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520014419 dimer interface [polypeptide binding]; other site 349520014420 conserved gate region; other site 349520014421 putative PBP binding loops; other site 349520014422 ABC-ATPase subunit interface; other site 349520014423 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 349520014424 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_3; cd08490 349520014425 xanthine permease; Region: pbuX; TIGR03173 349520014426 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349520014427 active site 349520014428 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 349520014429 nucleotide binding site [chemical binding]; other site 349520014430 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 349520014431 L-rhamnose isomerase; Provisional; Region: PRK01076 349520014432 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 349520014433 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 349520014434 intersubunit interface [polypeptide binding]; other site 349520014435 active site 349520014436 Zn2+ binding site [ion binding]; other site 349520014437 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 349520014438 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520014439 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520014440 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520014441 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 349520014442 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 349520014443 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 349520014444 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 349520014445 sensory histidine kinase DcuS; Provisional; Region: PRK11086 349520014446 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 349520014447 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 349520014448 heterodimer interface [polypeptide binding]; other site 349520014449 active site 349520014450 FMN binding site [chemical binding]; other site 349520014451 homodimer interface [polypeptide binding]; other site 349520014452 substrate binding site [chemical binding]; other site 349520014453 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 349520014454 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 349520014455 FAD binding pocket [chemical binding]; other site 349520014456 FAD binding motif [chemical binding]; other site 349520014457 phosphate binding motif [ion binding]; other site 349520014458 beta-alpha-beta structure motif; other site 349520014459 NAD binding pocket [chemical binding]; other site 349520014460 Iron coordination center [ion binding]; other site 349520014461 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 349520014462 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 349520014463 FeS/SAM binding site; other site 349520014464 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520014465 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 349520014466 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349520014467 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 349520014468 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349520014469 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349520014470 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 349520014471 dimerization interface [polypeptide binding]; other site 349520014472 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 349520014473 classical (c) SDRs; Region: SDR_c; cd05233 349520014474 NAD(P) binding site [chemical binding]; other site 349520014475 active site 349520014476 Predicted transcriptional regulators [Transcription]; Region: COG1733 349520014477 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 349520014478 putative DNA binding site [nucleotide binding]; other site 349520014479 putative Zn2+ binding site [ion binding]; other site 349520014480 short chain dehydrogenase; Provisional; Region: PRK07041 349520014481 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520014482 NAD(P) binding site [chemical binding]; other site 349520014483 active site 349520014484 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 349520014485 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 349520014486 catalytic residues [active] 349520014487 dimer interface [polypeptide binding]; other site 349520014488 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 349520014489 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520014490 DNA-binding interface [nucleotide binding]; DNA binding site 349520014491 short chain dehydrogenase; Provisional; Region: PRK12939 349520014492 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 349520014493 NADP binding site [chemical binding]; other site 349520014494 homodimer interface [polypeptide binding]; other site 349520014495 active site 349520014496 substrate binding site [chemical binding]; other site 349520014497 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 349520014498 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 349520014499 ligand binding site [chemical binding]; other site 349520014500 flexible hinge region; other site 349520014501 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 349520014502 non-specific DNA interactions [nucleotide binding]; other site 349520014503 DNA binding site [nucleotide binding] 349520014504 sequence specific DNA binding site [nucleotide binding]; other site 349520014505 putative cAMP binding site [chemical binding]; other site 349520014506 DinB superfamily; Region: DinB_2; pfam12867 349520014507 Predicted transcriptional regulator [Transcription]; Region: COG2378 349520014508 HTH domain; Region: HTH_11; pfam08279 349520014509 WYL domain; Region: WYL; pfam13280 349520014510 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 349520014511 GIY-YIG motif/motif A; other site 349520014512 active site 349520014513 catalytic site [active] 349520014514 putative DNA binding site [nucleotide binding]; other site 349520014515 metal binding site [ion binding]; metal-binding site 349520014516 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 349520014517 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 349520014518 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349520014519 catalytic residue [active] 349520014520 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 349520014521 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 349520014522 PYR/PP interface [polypeptide binding]; other site 349520014523 dimer interface [polypeptide binding]; other site 349520014524 TPP binding site [chemical binding]; other site 349520014525 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 349520014526 TPP-binding site; other site 349520014527 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 349520014528 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 349520014529 tetramer interface [polypeptide binding]; other site 349520014530 active site 349520014531 Mg2+/Mn2+ binding site [ion binding]; other site 349520014532 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 349520014533 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 349520014534 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 349520014535 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349520014536 active site 349520014537 catalytic tetrad [active] 349520014538 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 349520014539 Zn2+ binding site [ion binding]; other site 349520014540 Mg2+ binding site [ion binding]; other site 349520014541 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520014542 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 349520014543 active site 349520014544 phosphorylation site [posttranslational modification] 349520014545 intermolecular recognition site; other site 349520014546 dimerization interface [polypeptide binding]; other site 349520014547 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 349520014548 DNA binding site [nucleotide binding] 349520014549 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349520014550 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 349520014551 ATP binding site [chemical binding]; other site 349520014552 Mg2+ binding site [ion binding]; other site 349520014553 G-X-G motif; other site 349520014554 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 349520014555 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 349520014556 Walker A/P-loop; other site 349520014557 ATP binding site [chemical binding]; other site 349520014558 Q-loop/lid; other site 349520014559 ABC transporter signature motif; other site 349520014560 Walker B; other site 349520014561 D-loop; other site 349520014562 H-loop/switch region; other site 349520014563 FtsX-like permease family; Region: FtsX; pfam02687 349520014564 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 349520014565 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349520014566 active site 349520014567 catalytic tetrad [active] 349520014568 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 349520014569 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 349520014570 FeS/SAM binding site; other site 349520014571 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 349520014572 catalytic core [active] 349520014573 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 349520014574 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 349520014575 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 349520014576 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349520014577 catalytic residue [active] 349520014578 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 349520014579 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 349520014580 Uncharacterized conserved protein [Function unknown]; Region: COG2013 349520014581 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 349520014582 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 349520014583 PhnA protein; Region: PhnA; pfam03831 349520014584 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 349520014585 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 349520014586 NADP binding site [chemical binding]; other site 349520014587 putative lipid kinase; Reviewed; Region: PRK13337 349520014588 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 349520014589 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 349520014590 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 349520014591 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 349520014592 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 349520014593 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520014594 DNA-binding site [nucleotide binding]; DNA binding site 349520014595 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 349520014596 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349520014597 homodimer interface [polypeptide binding]; other site 349520014598 catalytic residue [active] 349520014599 EamA-like transporter family; Region: EamA; pfam00892 349520014600 EamA-like transporter family; Region: EamA; pfam00892 349520014601 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 349520014602 active site 349520014603 P-loop; other site 349520014604 phosphorylation site [posttranslational modification] 349520014605 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 349520014606 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 349520014607 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 349520014608 active site 349520014609 phosphorylation site [posttranslational modification] 349520014610 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 349520014611 HTH domain; Region: HTH_11; pfam08279 349520014612 Mga helix-turn-helix domain; Region: Mga; pfam05043 349520014613 PRD domain; Region: PRD; pfam00874 349520014614 PRD domain; Region: PRD; pfam00874 349520014615 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 349520014616 active site 349520014617 P-loop; other site 349520014618 phosphorylation site [posttranslational modification] 349520014619 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 349520014620 active site 349520014621 phosphorylation site [posttranslational modification] 349520014622 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349520014623 Coenzyme A binding pocket [chemical binding]; other site 349520014624 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 349520014625 RDD family; Region: RDD; pfam06271 349520014626 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 349520014627 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349520014628 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 349520014629 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 349520014630 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 349520014631 glycerate kinase; Region: TIGR00045 349520014632 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 349520014633 fructuronate transporter; Provisional; Region: PRK10034; cl15264 349520014634 Transcriptional regulators [Transcription]; Region: GntR; COG1802 349520014635 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520014636 DNA-binding site [nucleotide binding]; DNA binding site 349520014637 FCD domain; Region: FCD; pfam07729 349520014638 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 349520014639 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 349520014640 N- and C-terminal domain interface [polypeptide binding]; other site 349520014641 active site 349520014642 catalytic site [active] 349520014643 metal binding site [ion binding]; metal-binding site 349520014644 carbohydrate binding site [chemical binding]; other site 349520014645 ATP binding site [chemical binding]; other site 349520014646 fructuronate transporter; Provisional; Region: PRK10034; cl15264 349520014647 gluconate transporter; Region: gntP; TIGR00791 349520014648 potential frameshift: common BLAST hit: gi|169830136|ref|YP_001700294.1| 6-phosphogluconate dehydrogenase 349520014649 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 349520014650 potential frameshift: common BLAST hit: gi|52787966|ref|YP_093795.1| 6-phosphogluconate dehydrogenase 349520014651 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 349520014652 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 349520014653 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 349520014654 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 349520014655 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 349520014656 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 349520014657 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 349520014658 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520014659 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520014660 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 349520014661 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 349520014662 ATP binding site [chemical binding]; other site 349520014663 Mg++ binding site [ion binding]; other site 349520014664 motif III; other site 349520014665 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 349520014666 nucleotide binding region [chemical binding]; other site 349520014667 ATP-binding site [chemical binding]; other site 349520014668 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 349520014669 RNA polymerase sigma factor SigX; Provisional; Region: PRK09639 349520014670 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349520014671 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 349520014672 DNA binding residues [nucleotide binding] 349520014673 malate:quinone oxidoreductase; Validated; Region: PRK05257 349520014674 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 349520014675 hypothetical protein; Provisional; Region: PRK06761 349520014676 L-arabinose isomerase; Provisional; Region: PRK02929 349520014677 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 349520014678 hexamer (dimer of trimers) interface [polypeptide binding]; other site 349520014679 trimer interface [polypeptide binding]; other site 349520014680 substrate binding site [chemical binding]; other site 349520014681 Mn binding site [ion binding]; other site 349520014682 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 349520014683 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 349520014684 intersubunit interface [polypeptide binding]; other site 349520014685 active site 349520014686 Zn2+ binding site [ion binding]; other site 349520014687 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 349520014688 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 349520014689 putative N- and C-terminal domain interface [polypeptide binding]; other site 349520014690 putative active site [active] 349520014691 MgATP binding site [chemical binding]; other site 349520014692 catalytic site [active] 349520014693 metal binding site [ion binding]; metal-binding site 349520014694 putative carbohydrate binding site [chemical binding]; other site 349520014695 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349520014696 DNA-binding site [nucleotide binding]; DNA binding site 349520014697 Transcriptional regulators [Transcription]; Region: PurR; COG1609 349520014698 Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AraR; cd01541 349520014699 putative dimerization interface [polypeptide binding]; other site 349520014700 putative ligand binding site [chemical binding]; other site 349520014701 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520014702 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520014703 Methyltransferase domain; Region: Methyltransf_31; pfam13847 349520014704 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 349520014705 S-adenosylmethionine binding site [chemical binding]; other site 349520014706 Predicted transcriptional regulators [Transcription]; Region: COG1733 349520014707 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 349520014708 Predicted acyl esterases [General function prediction only]; Region: COG2936 349520014709 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 349520014710 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520014711 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520014712 Uncharacterized conserved protein [Function unknown]; Region: COG2353 349520014713 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 349520014714 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 349520014715 putative substrate translocation pore; other site 349520014716 Methyltransferase domain; Region: Methyltransf_23; pfam13489 349520014717 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 349520014718 S-adenosylmethionine binding site [chemical binding]; other site 349520014719 HEAT repeats; Region: HEAT_2; pfam13646 349520014720 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 349520014721 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 349520014722 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 349520014723 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 349520014724 G1 box; other site 349520014725 putative GEF interaction site [polypeptide binding]; other site 349520014726 GTP/Mg2+ binding site [chemical binding]; other site 349520014727 Switch I region; other site 349520014728 G2 box; other site 349520014729 G3 box; other site 349520014730 Switch II region; other site 349520014731 G4 box; other site 349520014732 G5 box; other site 349520014733 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 349520014734 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 349520014735 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 349520014736 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 349520014737 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 349520014738 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 349520014739 dimerization interface [polypeptide binding]; other site 349520014740 putative DNA binding site [nucleotide binding]; other site 349520014741 putative Zn2+ binding site [ion binding]; other site 349520014742 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 349520014743 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 349520014744 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 349520014745 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 349520014746 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 349520014747 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 349520014748 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 349520014749 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 349520014750 putative active site [active] 349520014751 putative FMN binding site [chemical binding]; other site 349520014752 putative substrate binding site [chemical binding]; other site 349520014753 putative catalytic residue [active] 349520014754 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 349520014755 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 349520014756 putative NAD(P) binding site [chemical binding]; other site 349520014757 putative active site [active] 349520014758 HPP family; Region: HPP; pfam04982 349520014759 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 349520014760 dimer interface [polypeptide binding]; other site 349520014761 putative tRNA-binding site [nucleotide binding]; other site 349520014762 Uncharacterized conserved protein [Function unknown]; Region: COG1359 349520014763 hypothetical protein; Provisional; Region: PRK07236 349520014764 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 349520014765 short chain dehydrogenase; Validated; Region: PRK06182 349520014766 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520014767 NAD(P) binding site [chemical binding]; other site 349520014768 active site 349520014769 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520014770 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520014771 WHG domain; Region: WHG; pfam13305 349520014772 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 349520014773 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 349520014774 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 349520014775 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 349520014776 DNA binding residues [nucleotide binding] 349520014777 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 349520014778 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 349520014779 substrate binding pocket [chemical binding]; other site 349520014780 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 349520014781 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 349520014782 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 349520014783 substrate binding pocket [chemical binding]; other site 349520014784 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 349520014785 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 349520014786 putative catalytic residues [active] 349520014787 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520014788 MarR family; Region: MarR; pfam01047 349520014789 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 349520014790 FAD binding domain; Region: FAD_binding_4; pfam01565 349520014791 Berberine and berberine like; Region: BBE; pfam08031 349520014792 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 349520014793 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 349520014794 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 349520014795 dimerization interface [polypeptide binding]; other site 349520014796 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349520014797 dimer interface [polypeptide binding]; other site 349520014798 putative CheW interface [polypeptide binding]; other site 349520014799 Predicted transcriptional regulators [Transcription]; Region: COG1733 349520014800 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 349520014801 dimerization interface [polypeptide binding]; other site 349520014802 putative DNA binding site [nucleotide binding]; other site 349520014803 putative Zn2+ binding site [ion binding]; other site 349520014804 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 349520014805 homotrimer interaction site [polypeptide binding]; other site 349520014806 putative active site [active] 349520014807 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 349520014808 potential frameshift: common BLAST hit: gi|226310940|ref|YP_002770834.1| disulfide oxidoreductase 349520014809 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 349520014810 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 349520014811 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 349520014812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349520014813 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349520014814 Rrf2 family protein; Region: rrf2_super; TIGR00738 349520014815 Transcriptional regulator; Region: Rrf2; pfam02082 349520014816 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 349520014817 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 349520014818 putative substrate translocation pore; other site 349520014819 Isochorismatase family; Region: Isochorismatase; pfam00857 349520014820 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 349520014821 catalytic triad [active] 349520014822 conserved cis-peptide bond; other site 349520014823 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349520014824 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349520014825 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 349520014826 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349520014827 active site 349520014828 catalytic tetrad [active] 349520014829 short chain dehydrogenase; Provisional; Region: PRK07454 349520014830 Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs; Region: carb_red_PTCR-like_SDR_c; cd05324 349520014831 NADP binding site [chemical binding]; other site 349520014832 substrate binding site [chemical binding]; other site 349520014833 active site 349520014834 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 349520014835 MarR family; Region: MarR_2; pfam12802 349520014836 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 349520014837 nondiscriminating aspartyl-tRNA synthetase; Region: aspS_nondisc; TIGR00458 349520014838 GTP-binding protein YchF; Reviewed; Region: PRK09601 349520014839 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 349520014840 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 349520014841 non-specific DNA binding site [nucleotide binding]; other site 349520014842 salt bridge; other site 349520014843 sequence-specific DNA binding site [nucleotide binding]; other site 349520014844 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 349520014845 non-specific DNA binding site [nucleotide binding]; other site 349520014846 salt bridge; other site 349520014847 sequence-specific DNA binding site [nucleotide binding]; other site 349520014848 DinB superfamily; Region: DinB_2; pfam12867 349520014849 DinB family; Region: DinB; cl17821 349520014850 Helix-turn-helix domain; Region: HTH_18; pfam12833 349520014851 YyzF-like protein; Region: YyzF; pfam14116 349520014852 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 349520014853 S-adenosylmethionine binding site [chemical binding]; other site 349520014854 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 349520014855 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 349520014856 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 349520014857 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 349520014858 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 349520014859 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 349520014860 protein binding site [polypeptide binding]; other site 349520014861 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 349520014862 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 349520014863 YycH protein; Region: YycI; cl02015 349520014864 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 349520014865 YycH protein; Region: YycH; pfam07435 349520014866 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 349520014867 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 349520014868 dimerization interface [polypeptide binding]; other site 349520014869 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 349520014870 putative active site [active] 349520014871 heme pocket [chemical binding]; other site 349520014872 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 349520014873 dimer interface [polypeptide binding]; other site 349520014874 phosphorylation site [posttranslational modification] 349520014875 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 349520014876 ATP binding site [chemical binding]; other site 349520014877 Mg2+ binding site [ion binding]; other site 349520014878 G-X-G motif; other site 349520014879 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349520014880 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 349520014881 active site 349520014882 phosphorylation site [posttranslational modification] 349520014883 intermolecular recognition site; other site 349520014884 dimerization interface [polypeptide binding]; other site 349520014885 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 349520014886 DNA binding site [nucleotide binding] 349520014887 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 349520014888 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349520014889 G5 domain; Region: G5; pfam07501 349520014890 Peptidase family M23; Region: Peptidase_M23; pfam01551 349520014891 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 349520014892 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 349520014893 GDP-binding site [chemical binding]; other site 349520014894 ACT binding site; other site 349520014895 IMP binding site; other site 349520014896 replicative DNA helicase; Provisional; Region: PRK05748 349520014897 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 349520014898 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 349520014899 Walker A motif; other site 349520014900 ATP binding site [chemical binding]; other site 349520014901 Walker B motif; other site 349520014902 DNA binding loops [nucleotide binding] 349520014903 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 349520014904 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 349520014905 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 349520014906 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 349520014907 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 349520014908 DHH family; Region: DHH; pfam01368 349520014909 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 349520014910 MazG-like family; Region: MazG-like; pfam12643 349520014911 FOG: CBS domain [General function prediction only]; Region: COG0517 349520014912 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 349520014913 Transcriptional regulator [Transcription]; Region: LytR; COG1316 349520014914 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 349520014915 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 349520014916 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 349520014917 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349520014918 Walker A/P-loop; other site 349520014919 ATP binding site [chemical binding]; other site 349520014920 Q-loop/lid; other site 349520014921 ABC transporter signature motif; other site 349520014922 Walker B; other site 349520014923 D-loop; other site 349520014924 H-loop/switch region; other site 349520014925 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 349520014926 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 349520014927 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349520014928 Walker A/P-loop; other site 349520014929 ATP binding site [chemical binding]; other site 349520014930 Q-loop/lid; other site 349520014931 ABC transporter signature motif; other site 349520014932 Walker B; other site 349520014933 D-loop; other site 349520014934 H-loop/switch region; other site 349520014935 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 349520014936 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 349520014937 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 349520014938 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520014939 dimer interface [polypeptide binding]; other site 349520014940 conserved gate region; other site 349520014941 putative PBP binding loops; other site 349520014942 ABC-ATPase subunit interface; other site 349520014943 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349520014944 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 349520014945 dimer interface [polypeptide binding]; other site 349520014946 conserved gate region; other site 349520014947 putative PBP binding loops; other site 349520014948 ABC-ATPase subunit interface; other site 349520014949 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 349520014950 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 349520014951 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 349520014952 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 349520014953 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 349520014954 dimer interface [polypeptide binding]; other site 349520014955 ssDNA binding site [nucleotide binding]; other site 349520014956 tetramer (dimer of dimers) interface [polypeptide binding]; other site 349520014957 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 349520014958 YjzC-like protein; Region: YjzC; pfam14168 349520014959 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 349520014960 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 349520014961 Mechanosensitive ion channel; Region: MS_channel; pfam00924 349520014962 Protein of unknown function (DUF1256); Region: DUF1256; pfam06866 349520014963 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 349520014964 ParB-like nuclease domain; Region: ParB; smart00470 349520014965 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 349520014966 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 349520014967 P-loop; other site 349520014968 Magnesium ion binding site [ion binding]; other site 349520014969 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 349520014970 Magnesium ion binding site [ion binding]; other site 349520014971 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 349520014972 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 349520014973 ParB-like nuclease domain; Region: ParB; smart00470 349520014974 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 349520014975 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 349520014976 S-adenosylmethionine binding site [chemical binding]; other site 349520014977 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 349520014978 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 349520014979 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 349520014980 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 349520014981 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 349520014982 trmE is a tRNA modification GTPase; Region: trmE; cd04164 349520014983 G1 box; other site 349520014984 GTP/Mg2+ binding site [chemical binding]; other site 349520014985 Switch I region; other site 349520014986 G2 box; other site 349520014987 Switch II region; other site 349520014988 G3 box; other site 349520014989 G4 box; other site 349520014990 G5 box; other site 349520014991 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 349520014992 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 349520014993 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 349520014994 G-X-X-G motif; other site 349520014995 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 349520014996 RxxxH motif; other site 349520014997 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 349520014998 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 349520014999 ribonuclease P; Reviewed; Region: rnpA; PRK00499 349520015000 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399